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PODNL1 podocan like 1 [ Homo sapiens (human) ]

Gene ID: 79883, updated on 18-Aug-2020

Summary

Official Symbol
PODNL1provided by HGNC
Official Full Name
podocan like 1provided by HGNC
Primary source
HGNC:HGNC:26275
See related
Ensembl:ENSG00000132000
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SLRR5B
Expression
Broad expression in placenta (RPKM 1.8), skin (RPKM 0.8) and 19 other tissues See more
Orthologs

Genomic context

See PODNL1 in Genome Data Viewer
Location:
19p13.12
Exon count:
9
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) 19 NC_000019.10 (13931187..13953383, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (14042000..14064204, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene nanos C2HC-type zinc finger 3 Neighboring gene microRNA 181d Neighboring gene break repair meiotic recombinase recruitment factor 1 Neighboring gene coiled-coil and C2 domain containing 1A Neighboring gene DDB1 and CUL4 associated factor 15 Neighboring gene regulatory factor X1 Neighboring gene uncharacterized LOC107985309 Neighboring gene CRISPRi-validated cis-regulatory element chr19.2299

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

General gene information

Homology

Clone Names

  • FLJ23447

Gene Ontology Provided by GOA

Component Evidence Code Pubs
collagen-containing extracellular matrix IEA
Inferred from Electronic Annotation
more info
 
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

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.

mRNA and Protein(s)

  1. NM_001146254.2NP_001139726.1  podocan-like protein 1 isoform 2 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) encodes the longest isoform (2).
    Source sequence(s)
    AC020916, AI219486, AK027100, AK296101, AK298489, BC052610
    Consensus CDS
    CCDS54226.1
    UniProtKB/Swiss-Prot
    Q6PEZ8
    UniProtKB/TrEMBL
    B7Z3M0
    Related
    ENSP00000442553.1, ENST00000538371.6
    Conserved Domains (3) summary
    cd00116
    Location:72325
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:98123
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:214276
    LRR_8; Leucine rich repeat
  2. NM_001146255.2NP_001139727.1  podocan-like protein 1 isoform 3 precursor

    See identical proteins and their annotated locations for NP_001139727.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks two consecutive alternate exons in the 5' coding region, compared to variant 2. It encodes isoform 3, which lacks an internal in-frame segment and is shorter, compared to isoform 2.
    Source sequence(s)
    AC020916, AI219486, AK027100, AK298489, BC052610
    Consensus CDS
    CCDS54225.1
    UniProtKB/Swiss-Prot
    Q6PEZ8
    Related
    ENSP00000440080.1, ENST00000538517.6
    Conserved Domains (3) summary
    cd00116
    Location:72303
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:7597
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:149208
    LRR_8; Leucine rich repeat
  3. NM_001370095.1NP_001357024.1  podocan-like protein 1 isoform 4 precursor

    Status: VALIDATED

    Source sequence(s)
    AC020916
    Related
    ENSP00000467395.2, ENST00000588872.2
    Conserved Domains (3) summary
    PLN00113
    Location:159536
    PLN00113; leucine-rich repeat receptor-like protein kinase; Provisional
    sd00033
    Location:100125
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:77136
    LRR_8; Leucine rich repeat
  4. NM_024825.5NP_079101.4  podocan-like protein 1 isoform 1 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) includes an alternate 5' terminal exon, resulting in a different 5' UTR and 5' coding region, compared to variant 2. It encodes isoform 1, which is shorter and has a distinct N-terminus, compared to isoform 2.
    Source sequence(s)
    AC020916, AK290731, BC052610, BC057786, CA411674
    Consensus CDS
    CCDS12300.2
    Related
    ENSP00000345175.5, ENST00000339560.10
    Conserved Domains (3) summary
    sd00033
    Location:93118
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:422475
    LRR_8; Leucine rich repeat
    cl26018
    Location:188442
    NEL; C-terminal novel E3 ligase, LRR-interacting

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p13 Primary Assembly

    Range
    13931187..13953383 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011528316.1XP_011526618.1  podocan-like protein 1 isoform X11

    Conserved Domains (3) summary
    cd00116
    Location:64223
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:7196
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:258320
    LRR_8; Leucine rich repeat
  2. XM_011528313.1XP_011526615.1  podocan-like protein 1 isoform X7

    Conserved Domains (3) summary
    cd00116
    Location:86312
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:6588
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:134196
    LRR_8; Leucine rich repeat
  3. XM_011528308.1XP_011526610.1  podocan-like protein 1 isoform X2

    Conserved Domains (3) summary
    cd00116
    Location:72325
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:98123
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:214276
    LRR_8; Leucine rich repeat
  4. XM_011528309.2XP_011526611.1  podocan-like protein 1 isoform X3

    Conserved Domains (4) summary
    cd00116
    Location:217376
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:224249
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:77112
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:411473
    LRR_8; Leucine rich repeat
  5. XM_011528310.2XP_011526612.1  podocan-like protein 1 isoform X4

    Conserved Domains (3) summary
    cd00116
    Location:74297
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:169187
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:186248
    LRR_8; Leucine rich repeat
  6. XM_006722903.1XP_006722966.1  podocan-like protein 1 isoform X8

    Conserved Domains (3) summary
    cd00116
    Location:74305
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:7799
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:340402
    LRR_8; Leucine rich repeat
  7. XM_006722902.1XP_006722965.1  podocan-like protein 1 isoform X6

    Conserved Domains (3) summary
    cd00116
    Location:74349
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:7799
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:171233
    LRR_8; Leucine rich repeat
  8. XM_011528314.1XP_011526616.1  podocan-like protein 1 isoform X9

    Conserved Domains (3) summary
    cd00116
    Location:84297
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:102120
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:119181
    LRR_8; Leucine rich repeat
  9. XM_011528311.1XP_011526613.1  podocan-like protein 1 isoform X5

    Conserved Domains (3) summary
    cd00116
    Location:202361
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:209234
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:396458
    LRR_8; Leucine rich repeat
  10. XM_017027313.1XP_016882802.1  podocan-like protein 1 isoform X12

  11. XM_024451726.1XP_024307494.1  podocan-like protein 1 isoform X10

    Conserved Domains (2) summary
    sd00033
    Location:7799
    LRR_RI; leucine-rich repeat [structural motif]
    cl26018
    Location:121376
    NEL; C-terminal novel E3 ligase, LRR-interacting

Reference GRCh38.p13 PATCHES

Genomic

  1. NW_021160022.1 Reference GRCh38.p13 PATCHES

    Range
    143028..165224 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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