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    pax2a paired box 2a [ Danio rerio (zebrafish) ]

    Gene ID: 30425, updated on 5-May-2024

    Summary

    Official Symbol
    pax2aprovided by ZNC
    Official Full Name
    paired box 2aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-990415-8
    See related
    Ensembl:ENSDARG00000028148 AllianceGenome:ZFIN:ZDB-GENE-990415-8
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    noi; paxb; Pax-2; cb378; pax-b; pax2.1; pax2a1; PAXZF-B; pax[zf-b]
    Summary
    Enables sequence-specific DNA binding activity. Involved in nervous system development. Acts upstream of or within several processes, including animal organ development; cilium assembly; and nervous system development. Located in nucleus. Is expressed in several structures, including immature eye; mesoderm; nervous system; neural keel; and pronephros. Used to study coloboma. Human ortholog(s) of this gene implicated in focal segmental glomerulosclerosis 7 and renal coloboma syndrome. Orthologous to human PAX2 (paired box 2). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    Location:
    chromosome: 13
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 13 NC_007124.7 (29769732..29804925)
    105 previous assembly GRCz10 (GCF_000002035.5) 13 NC_007124.6 (29640165..29673809)

    Chromosome 13 - NC_007124.7Genomic Context describing neighboring genes Neighboring gene carbohydrate (chondroitin 6) sulfotransferase 3a Neighboring gene uncharacterized LOC101883680 Neighboring gene CUE domain containing 2 Neighboring gene hypoxia inducible factor 1 subunit alpha inhibitor

    Genomic regions, transcripts, and products

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    General gene information

    Markers

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
     
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in anatomical structure development IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within anterior/posterior pattern specification IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within anterior/posterior pattern specification IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within anterior/posterior pattern specification involved in pronephros development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cell fate specification IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within cell fate specification IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within cerebellum development IMP
    Inferred from Mutant Phenotype
    more info
     
    acts_upstream_of_or_within cerebellum formation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within cilium assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within closure of optic fissure IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within embryonic camera-type eye morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within embryonic pattern specification IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within glial cell development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within hindbrain development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within inner ear receptor cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within kidney development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within locus ceruleus development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within midbrain development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within midbrain development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within midbrain-hindbrain boundary development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within nervous system development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in nervous system development IMP
    Inferred from Mutant Phenotype
    more info
     
    acts_upstream_of_or_within otic placode formation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within otic placode formation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within peripheral nervous system development IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within peripheral nervous system development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within pronephric glomerulus morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within pronephros development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within pronephros morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within retina development in camera-type eye IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within thyroid gland development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within vestibular receptor cell development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    paired box protein Pax-2a
    Names
    no isthmus protein
    paired box gene 2.1
    paired box gene 2a
    paired box homeotic gene 2a

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_131184.2NP_571259.1  paired box protein Pax-2a

      See identical proteins and their annotated locations for NP_571259.1

      Status: PROVISIONAL

      Source sequence(s)
      BC066690
      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      Related
      ENSDARP00000071466.4, ENSDART00000076998.6
      Conserved Domains (2) summary
      smart00351
      Location:15139
      PAX; Paired Box domain
      pfam12403
      Location:284389
      Pax2_C; Paired-box protein 2 C terminal

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007124.7 Reference GRCz11 Primary Assembly

      Range
      29769732..29804925
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021480493.1XP_021336168.1  paired box protein Pax-2a isoform X1

      UniProtKB/TrEMBL
      A0A8M9Q9G5
      Conserved Domains (2) summary
      smart00351
      Location:19150
      PAX; Paired Box domain
      pfam12403
      Location:391500
      Pax2_C; Paired-box protein 2 C terminal
    2. XM_017358679.2XP_017214168.1  paired box protein Pax-2a isoform X2

      UniProtKB/TrEMBL
      A0A8M6Z270
    3. XM_021480496.1XP_021336171.1  paired box protein Pax-2a isoform X6

      UniProtKB/TrEMBL
      A0A8M9QJH4
      Conserved Domains (2) summary
      smart00351
      Location:19150
      PAX; Paired Box domain
      pfam12403
      Location:376485
      Pax2_C; Paired-box protein 2 C terminal
    4. XM_021480495.1XP_021336170.1  paired box protein Pax-2a isoform X5

      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      UniProtKB/TrEMBL
      A0A8M9QN86
      Conserved Domains (2) summary
      smart00351
      Location:19150
      PAX; Paired Box domain
      pfam12403
      Location:391502
      Pax2_C; Paired-box protein 2 C terminal
    5. XM_021480510.1XP_021336185.1  paired box protein Pax-2a isoform X25

      UniProtKB/TrEMBL
      A0A8M9QN98
      Conserved Domains (2) summary
      smart00351
      Location:19150
      PAX; Paired Box domain
      pfam12403
      Location:233316
      Pax2_C; Paired-box protein 2 C terminal
    6. XM_021480497.1XP_021336172.1  paired box protein Pax-2a isoform X7

      UniProtKB/TrEMBL
      A0A8M9PXK5
      Conserved Domains (2) summary
      smart00351
      Location:19150
      PAX; Paired Box domain
      pfam12403
      Location:374483
      Pax2_C; Paired-box protein 2 C terminal
    7. XM_021480499.1XP_021336174.1  paired box protein Pax-2a isoform X10

      UniProtKB/TrEMBL
      A0A8M9QF63
      Conserved Domains (2) summary
      smart00351
      Location:19150
      PAX; Paired Box domain
      pfam12403
      Location:359468
      Pax2_C; Paired-box protein 2 C terminal
    8. XM_021480494.1XP_021336169.1  paired box protein Pax-2a isoform X3

      UniProtKB/TrEMBL
      A0A8M9QF58
      Conserved Domains (2) summary
      smart00351
      Location:19143
      PAX; Paired Box domain
      pfam12403
      Location:384493
      Pax2_C; Paired-box protein 2 C terminal
    9. XM_005156735.4XP_005156792.1  paired box protein Pax-2a isoform X4

      UniProtKB/TrEMBL
      A0A8M2B324
      Conserved Domains (2) summary
      smart00351
      Location:15139
      PAX; Paired Box domain
      pfam12403
      Location:380489
      Pax2_C; Paired-box protein 2 C terminal
    10. XM_021480502.1XP_021336177.1  paired box protein Pax-2a isoform X14

      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      UniProtKB/TrEMBL
      A0A8M9PXL0
      Conserved Domains (2) summary
      smart00351
      Location:19150
      PAX; Paired Box domain
      pfam12403
      Location:327430
      Pax2_C; Paired-box protein 2 C terminal
    11. XM_021480511.1XP_021336186.1  paired box protein Pax-2a isoform X26

      UniProtKB/TrEMBL
      A0A8M9QJI6
      Conserved Domains (2) summary
      smart00351
      Location:19150
      PAX; Paired Box domain
      pfam12403
      Location:216299
      Pax2_C; Paired-box protein 2 C terminal
    12. XM_021480503.1XP_021336178.1  paired box protein Pax-2a isoform X15

      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      UniProtKB/TrEMBL
      A0A8M9Q9H5
      Conserved Domains (2) summary
      smart00351
      Location:19150
      PAX; Paired Box domain
      pfam12403
      Location:327432
      Pax2_C; Paired-box protein 2 C terminal
    13. XM_021480498.1XP_021336173.1  paired box protein Pax-2a isoform X8

      UniProtKB/TrEMBL
      A0A8M9Q9H0
      Conserved Domains (2) summary
      smart00351
      Location:19143
      PAX; Paired Box domain
      pfam12403
      Location:367476
      Pax2_C; Paired-box protein 2 C terminal
    14. XM_017358683.2XP_017214172.1  paired box protein Pax-2a isoform X9

      UniProtKB/TrEMBL
      A0A8M6Z3Q2
    15. XM_021480500.1XP_021336175.1  paired box protein Pax-2a isoform X11

      UniProtKB/TrEMBL
      A0A8M9QN89
      Conserved Domains (2) summary
      smart00351
      Location:19143
      PAX; Paired Box domain
      pfam12403
      Location:352461
      Pax2_C; Paired-box protein 2 C terminal
    16. XM_017358684.2XP_017214173.1  paired box protein Pax-2a isoform X12

      UniProtKB/TrEMBL
      A0A8M6Z9H7
    17. XM_021480504.1XP_021336179.1  paired box protein Pax-2a isoform X16

      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      UniProtKB/TrEMBL
      A0A8M9QF68
      Related
      ENSDARP00000131368.2, ENSDART00000160921.2
      Conserved Domains (2) summary
      smart00351
      Location:19150
      PAX; Paired Box domain
      pfam12403
      Location:310413
      Pax2_C; Paired-box protein 2 C terminal
    18. XM_021480501.1XP_021336176.1  paired box protein Pax-2a isoform X13

      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      UniProtKB/TrEMBL
      A0A8M9QJH9
      Conserved Domains (2) summary
      smart00351
      Location:19143
      PAX; Paired Box domain
      pfam12403
      Location:352463
      Pax2_C; Paired-box protein 2 C terminal
    19. XM_017358685.2XP_017214174.1  paired box protein Pax-2a isoform X29

      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      UniProtKB/TrEMBL
      A0A8M6Z1K8
    20. XM_021480506.1XP_021336181.1  paired box protein Pax-2a isoform X19

      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      UniProtKB/TrEMBL
      A0A8M9QJI2
      Conserved Domains (2) summary
      smart00351
      Location:19150
      PAX; Paired Box domain
      pfam12403
      Location:295398
      Pax2_C; Paired-box protein 2 C terminal
    21. XM_021480505.1XP_021336180.1  paired box protein Pax-2a isoform X17

      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      UniProtKB/TrEMBL
      A0A8M9QN93
      Related
      ENSDARP00000119623.1, ENSDART00000141310.3
      Conserved Domains (2) summary
      smart00351
      Location:19143
      PAX; Paired Box domain
      pfam12403
      Location:303406
      Pax2_C; Paired-box protein 2 C terminal
    22. XM_005156744.4XP_005156801.1  paired box protein Pax-2a isoform X18

      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      UniProtKB/TrEMBL
      A0A8M2B3N2
      Related
      ENSDARP00000112529.1, ENSDART00000138332.3
      Conserved Domains (2) summary
      smart00351
      Location:15139
      PAX; Paired Box domain
      pfam12403
      Location:299402
      Pax2_C; Paired-box protein 2 C terminal
    23. XM_021480508.1XP_021336183.1  paired box protein Pax-2a isoform X21

      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      UniProtKB/TrEMBL
      A0A8M9Q9I1
      Related
      ENSDARP00000123397.1, ENSDART00000133796.3
      Conserved Domains (2) summary
      smart00351
      Location:19143
      PAX; Paired Box domain
      pfam12403
      Location:288391
      Pax2_C; Paired-box protein 2 C terminal
    24. XM_021480507.1XP_021336182.1  paired box protein Pax-2a isoform X20

      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      UniProtKB/TrEMBL
      A0A8M9PXL5
      Related
      ENSDARP00000134011.2, ENSDART00000160944.2
      Conserved Domains (2) summary
      smart00351
      Location:19143
      PAX; Paired Box domain
      pfam12403
      Location:303408
      Pax2_C; Paired-box protein 2 C terminal
    25. XM_021480512.1XP_021336187.1  paired box protein Pax-2a isoform X27

      UniProtKB/TrEMBL
      A0A8M9PXM3
      Conserved Domains (2) summary
      smart00351
      Location:19143
      PAX; Paired Box domain
      pfam12403
      Location:209294
      Pax2_C; Paired-box protein 2 C terminal
    26. XM_005156748.4XP_005156805.1  paired box protein Pax-2a isoform X23

      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      UniProtKB/TrEMBL
      A0A8M2B2T3
      Conserved Domains (2) summary
      smart00351
      Location:15139
      PAX; Paired Box domain
      pfam12403
      Location:284387
      Pax2_C; Paired-box protein 2 C terminal
    27. XM_005156747.4XP_005156804.1  paired box protein Pax-2a isoform X22

      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      UniProtKB/TrEMBL
      A0A8M2B3H8, B8JJS4
      Related
      ENSDARP00000113404.1, ENSDART00000134330.3
      Conserved Domains (2) summary
      smart00351
      Location:15139
      PAX; Paired Box domain
      pfam12403
      Location:299404
      Pax2_C; Paired-box protein 2 C terminal
    28. XM_021480513.1XP_021336188.1  paired box protein Pax-2a isoform X28

      UniProtKB/TrEMBL
      A0A8M9Q9I5
      Related
      ENSDARP00000121417.1, ENSDART00000134424.3
      Conserved Domains (2) summary
      smart00351
      Location:15139
      PAX; Paired Box domain
      pfam12403
      Location:205290
      Pax2_C; Paired-box protein 2 C terminal
    29. XM_021480509.1XP_021336184.1  paired box protein Pax-2a isoform X24

      UniProtKB/Swiss-Prot
      Q90268, Q9PWK8, Q9PWK9, Q9PWL0, Q9PWL1, Q9YGU5, Q9YGU6, Q9YGU7, Q9YGU8, Q9YGU9, Q9YGV0
      UniProtKB/TrEMBL
      A0A8M9QF73
      Related
      ENSDARP00000071460.5, ENSDART00000076992.6
      Conserved Domains (2) summary
      smart00351
      Location:19143
      PAX; Paired Box domain
      pfam12403
      Location:288393
      Pax2_C; Paired-box protein 2 C terminal