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LARP1B La ribonucleoprotein domain family member 1B [ Homo sapiens (human) ]

Gene ID: 55132, updated on 14-Jul-2019

Summary

Official Symbol
LARP1Bprovided by HGNC
Official Full Name
La ribonucleoprotein domain family member 1Bprovided by HGNC
Primary source
HGNC:HGNC:24704
See related
Ensembl:ENSG00000138709
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LARP2
Summary
This gene encodes a protein containing domains found in the La related protein of Drosophila melanogaster. La motif-containing proteins are thought to be RNA-binding proteins, where the La motif and adjacent amino acids fold into an RNA recognition motif. The La motif is also found in proteins unrelated to the La protein. Alternative splicing has been observed at this locus and multiple variants, encoding distinct isoforms, are described. Additional splice variation has been identified but the full-length nature of these transcripts has not been determined. [provided by RefSeq, Jun 2013]
Expression
Broad expression in testis (RPKM 13.1), liver (RPKM 5.0) and 25 other tissues See more
Orthologs

Genomic context

See LARP1B in Genome Data Viewer
Location:
4q28.2
Exon count:
29
Annotation release Status Assembly Chr Location
109.20190607 current GRCh38.p13 (GCF_000001405.39) 4 NC_000004.12 (128060655..128222931)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (128982421..129144086)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene RNA, U6 small nuclear 583, pseudogene Neighboring gene polo like kinase 4 Neighboring gene major facilitator superfamily domain containing 8 Neighboring gene abhydrolase domain containing 18 Neighboring gene ribosomal protein L15 pseudogene 8 Neighboring gene FOSL1 pseudogene 1 Neighboring gene progesterone receptor membrane component 2 Neighboring gene long intergenic non-protein coding RNA 2615 Neighboring gene NFE2L2 motif-containing MPRA enhancer 199

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC75174, MGC117277, DKFZp686L13217

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
nucleus HDA PubMed 

General protein information

Preferred Names
la-related protein 1B
Names
La ribonucleoprotein domain family, member 2
la-related protein 2

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_047161.1 RefSeqGene

    Range
    5001..154878
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001278604.2NP_001265533.1  la-related protein 1B isoform 4

    See identical proteins and their annotated locations for NP_001265533.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks several exons and includes an alternate 3' terminal exon, compared to variant 1. It encodes isoform 4 which is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AK092764, BC110300, DA181086
    Consensus CDS
    CCDS64057.1
    UniProtKB/Swiss-Prot
    Q659C4
    Related
    ENSP00000377829.3, ENST00000394288.7
    Conserved Domains (1) summary
    cl02755
    Location:216288
    LAM; LA motif RNA-binding domain
  2. NM_001350531.2NP_001337460.1  la-related protein 1B isoform 5

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR, contains multiple coding region differences and uses a downstream start codon, compared to variant 1. It encodes isoform 5, which is shorter than isoform 1.
    Source sequence(s)
    AC096898, AK027164, AK092764, AL137759, BC018794, BX103089, BX537937
    Conserved Domains (2) summary
    smart00684
    Location:468506
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    cl02755
    Location:147
    LAM; LA motif RNA-binding domain
  3. NM_018078.4NP_060548.2  la-related protein 1B isoform 1

    See identical proteins and their annotated locations for NP_060548.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC096898, AI374914, AK027164, AK092764, AL137759, DA181086, DB230609
    Consensus CDS
    CCDS3738.1
    UniProtKB/Swiss-Prot
    Q659C4
    Related
    ENSP00000321997.6, ENST00000326639.11
    Conserved Domains (2) summary
    smart00684
    Location:748786
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    cd08038
    Location:216288
    LARP_2; La RNA-binding domain of La-related protein 2
  4. NM_032239.4NP_115615.2  la-related protein 1B isoform 3

    See identical proteins and their annotated locations for NP_115615.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks several exons and its transcription extends past a splice site that is used in variant 1, resulting in a novel 3' coding region and 3' UTR, compared to variant 1. It encodes isoform 3 which is much shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AA037692, AC108045, AK092764, AL832170, DA181086
    Consensus CDS
    CCDS47133.1
    UniProtKB/Swiss-Prot
    Q659C4
    UniProtKB/TrEMBL
    G3V0E9
    Related
    ENSP00000390395.2, ENST00000432347.6
    Conserved Domains (1) summary
    cl02755
    Location:216288
    LAM; LA motif RNA-binding domain
  5. NM_178043.3NP_835144.1  la-related protein 1B isoform 2

    See identical proteins and their annotated locations for NP_835144.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks several exons and its transcription extends past a splice site that is used in variant 1, resulting in a novel 3' coding region and 3' UTR, compared to variant 1. It encodes isoform 2 which is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AK001240, AK092764, BM129812, DA181086
    UniProtKB/Swiss-Prot
    Q659C4
    Related
    ENSP00000424383.1, ENST00000507377.1
    Conserved Domains (1) summary
    cl02755
    Location:216288
    LAM; LA motif RNA-binding domain

RNA

  1. NR_146772.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) lacks two internal exons and contains an alternate 3' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AI652589, AI806546, AK027164, AK092764, AL137759, BC018794, BX537937

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p13 Primary Assembly

    Range
    128060655..128222931
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017008340.1XP_016863829.1  la-related protein 1B isoform X12

    Conserved Domains (2) summary
    smart00684
    Location:776814
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    cl02755
    Location:216288
    LAM; LA motif RNA-binding domain
  2. XM_017008344.1XP_016863833.1  la-related protein 1B isoform X14

    Conserved Domains (2) summary
    smart00684
    Location:736774
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    cl02755
    Location:216288
    LAM; LA motif RNA-binding domain
  3. XM_017008353.1XP_016863842.1  la-related protein 1B isoform X27

    UniProtKB/Swiss-Prot
    Q659C4
    Conserved Domains (1) summary
    cl02755
    Location:216288
    LAM; LA motif RNA-binding domain
  4. XM_011532067.1XP_011530369.1  la-related protein 1B isoform X12

    Conserved Domains (2) summary
    smart00684
    Location:776814
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    cl02755
    Location:216288
    LAM; LA motif RNA-binding domain
  5. XM_017008343.1XP_016863832.1  la-related protein 1B isoform X14

    Conserved Domains (2) summary
    smart00684
    Location:736774
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    cl02755
    Location:216288
    LAM; LA motif RNA-binding domain
  6. XM_017008341.1XP_016863830.1  la-related protein 1B isoform X12

    Conserved Domains (2) summary
    smart00684
    Location:776814
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    cl02755
    Location:216288
    LAM; LA motif RNA-binding domain
  7. XM_011532061.2XP_011530363.1  la-related protein 1B isoform X7

    Conserved Domains (3) summary
    smart00684
    Location:930968
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    cd08038
    Location:370442
    LARP_2; La RNA-binding domain of La-related protein 2
    COG5193
    Location:200434
    LHP1; La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
  8. XM_011532065.2XP_011530367.1  la-related protein 1B isoform X11

    Conserved Domains (3) summary
    smart00684
    Location:890928
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    cd08038
    Location:370442
    LARP_2; La RNA-binding domain of La-related protein 2
    COG5193
    Location:200434
    LHP1; La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
  9. XM_011532057.2XP_011530359.2  la-related protein 1B isoform X2

  10. XM_017008338.1XP_016863827.1  la-related protein 1B isoform X1

  11. XM_011532059.2XP_011530361.2  la-related protein 1B isoform X4

  12. XM_011532058.3XP_011530360.2  la-related protein 1B isoform X3

  13. XM_011532062.2XP_011530364.2  la-related protein 1B isoform X8

  14. XM_017008339.1XP_016863828.1  la-related protein 1B isoform X5

    Related
    ENSP00000497192.1, ENST00000649983.1
  15. XM_011532063.2XP_011530365.2  la-related protein 1B isoform X9

  16. XM_011532060.2XP_011530362.2  la-related protein 1B isoform X6

  17. XM_011532064.2XP_011530366.2  la-related protein 1B isoform X10

  18. XM_011532075.1XP_011530377.1  la-related protein 1B isoform X24

    See identical proteins and their annotated locations for XP_011530377.1

    Conserved Domains (2) summary
    smart00684
    Location:535573
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    cl02755
    Location:147
    LAM; LA motif RNA-binding domain
  19. XM_011532070.2XP_011530372.2  la-related protein 1B isoform X17

  20. XM_011532072.2XP_011530374.2  la-related protein 1B isoform X18

  21. XM_017008347.1XP_016863836.1  la-related protein 1B isoform X21

  22. XM_017008345.1XP_016863834.1  la-related protein 1B isoform X20

  23. XM_011532073.2XP_011530375.2  la-related protein 1B isoform X19

  24. XM_024454116.1XP_024309884.1  la-related protein 1B isoform X22

    Conserved Domains (1) summary
    cd08038
    Location:417489
    LARP_2; La RNA-binding domain of La-related protein 2
  25. XM_017008348.1XP_016863837.1  la-related protein 1B isoform X23

  26. XM_011532068.1XP_011530370.1  la-related protein 1B isoform X15

    Conserved Domains (3) summary
    smart00684
    Location:729767
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    COG5193
    Location:3233
    LHP1; La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
    cl02755
    Location:169241
    LAM; LA motif RNA-binding domain
  27. XM_011532069.1XP_011530371.1  la-related protein 1B isoform X16

    UniProtKB/Swiss-Prot
    Q659C4
    Conserved Domains (3) summary
    smart00684
    Location:689727
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    COG5193
    Location:5233
    LHP1; La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
    cl02755
    Location:169241
    LAM; LA motif RNA-binding domain
  28. XM_017008352.1XP_016863841.1  la-related protein 1B isoform X26

    Related
    ENSP00000497514.1, ENST00000648358.1
  29. XM_024454117.1XP_024309885.1  la-related protein 1B isoform X24

    Conserved Domains (2) summary
    smart00684
    Location:535573
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    cl02755
    Location:147
    LAM; LA motif RNA-binding domain
  30. XM_017008342.1XP_016863831.1  la-related protein 1B isoform X13

  31. XM_024454118.1XP_024309886.1  la-related protein 1B isoform X24

    Conserved Domains (2) summary
    smart00684
    Location:535573
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    cl02755
    Location:147
    LAM; LA motif RNA-binding domain
  32. XM_017008350.1XP_016863839.1  la-related protein 1B isoform X25

  33. XM_011532077.2XP_011530379.1  la-related protein 1B isoform X24

    See identical proteins and their annotated locations for XP_011530379.1

    Conserved Domains (2) summary
    smart00684
    Location:535573
    DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
    cl02755
    Location:147
    LAM; LA motif RNA-binding domain

RNA

  1. XR_001741274.1 RNA Sequence

  2. XR_938753.2 RNA Sequence

  3. XR_938754.2 RNA Sequence

  4. XR_938756.2 RNA Sequence

  5. XR_001741268.1 RNA Sequence

  6. XR_001741269.1 RNA Sequence

  7. XR_002959741.1 RNA Sequence

  8. XR_938761.3 RNA Sequence

  9. XR_001741271.1 RNA Sequence

  10. XR_001741272.2 RNA Sequence

  11. XR_938758.2 RNA Sequence

  12. XR_001741273.1 RNA Sequence

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