HsaINT0039341 @ hg38
Intron Retention
Gene
ENSG00000204262 | COL5A2
Description
collagen type V alpha 2 chain [Source:HGNC Symbol;Acc:HGNC:2210]
Coordinates
chr2:189085719-189086770:-
Coord C1 exon
chr2:189086726-189086770
Coord A exon
chr2:189085773-189086725
Coord C2 exon
chr2:189085719-189085772
Length
953 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TACTTTGTTTTCAACTGTAGGGT
3' ss Score
9.76
Exon sequences
Seq C1 exon
GGTCCTGTTGGCCCAAGGGGACCACAGGGTTTACAAGGACAGCAA
Seq A exon
GTAAGTCTCTTTATAATTAATTACATGCTGTAAGAAAAACATACACACACACATATATTACATAAGGTCTCTGTGACATGACTGCTTTTGGCTGGTTTTAAAATTTTATATTGTAATGCTCACTTCAAACAGGATATATTAAATAGTTTTTATTTAGAAATATATGCCACATGTCTTTGCAAAGTTTATTGGGATAAATTTTTATCATCTGATTTCTTTATGTGACTGACCTTCGATAACAAAATTACATGACTTTGCATCTGAAGTAAGAAATTCATTATGTTATGTCATGAAAATGTTCACAATTGGTTATATGCCAACTCTGAAGCTATGAAATCAGATCATAGGAGGCAATCCCCGTGTAGTATTATTAGAAATAAGAATCAAGATGTTTGTTCCATGGGATCTTTAGGAAGAATATAATACAATATGCTTTTAAAATGCCTATCAGATGCCAGTAAAATAGTGATGTAGAACTATTTTTATTTATTATAGCAATTTAACAGGCATCAGGAAATAATATTTTAAAAGAAAGAATGAAAATAACCTTTAGTTCAGTCAAGGTTACCACATTGTCATTGTCATGTGTGTGGAGTTTTACTTCAAGCTATCAGTGACTAGAAAATGTGGTTGATGATGGTGATGATGATGATGTTGATGAGGAGAACTACCATTGATGGAGCACTCACACACTGTGCCAGCACTATTCTAGGTTCTTAACATACATTAATTACTTCAGCAGCCATAACAGCCTAATAAAGTAAGTACCAATATTATTCTGATTTTACACATTAGGAAACAGTTACAGACAGATTAAGTAACTTGCCCAAAGTCACACAGCTGGAAGATGGCAGAGCCAACTGTCTAAACAATTACACTGTATATTGACAGAGTACAGGGTTTAATATTCTATTTTTCCTTGGTTTGTATATATACTTTGTTTTCAACTGTAG
Seq C2 exon
GGTGGTGCAGGACCTACAGGACCTCCTGGTGAACCTGGTGATCCTGGACCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204262:ENST00000374866:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(21.9=100)
A:
NA
C2:
PF0139113=Collagen=FE(27.9=100),PF0139113=Collagen=PU(1.2=5.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development