GgaINT0045567 @ galGal4
Intron Retention
Gene
ENSGALG00000002509 | COL5A2
Description
collagen, type V, alpha 2 [Source:HGNC Symbol;Acc:HGNC:2210]
Coordinates
chr7:512525-514007:+
Coord C1 exon
chr7:512525-512578
Coord A exon
chr7:512579-513953
Coord C2 exon
chr7:513954-514007
Length
1375 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
CTTTTTCTTTTTCCTCTTAGGGT
3' ss Score
11.86
Exon sequences
Seq C1 exon
GGTCCAGTTGGTTCACGTGGACCAGAAGGGCCTCCAGGCAAACCTGGTGAAGAT
Seq A exon
GTAAGTTTGTTATTGTTCGTATTTTGTTTTATTCCTAATAAAACAAATATTGGCTTCTTTTAAGGAATGACTAACCAGCAGATGTGTCGGTTGCAGCTACATCTTTTCTATTTCCTCTCTGTAATCATACTTCTCATTATTGCAGTGTCATAACAATAATCTCTAGCAATGTTTTTCTGTTGAAAACCTTCCTTTCTTCTCATTACATGTTACCGTGATACCCAAAGTTTAAGCACTCTCTTTTTATTATTTCTTTCCTTAGCCAGTTCTTCAGTAAGATGTCTTTCTTGAAATCAGGGGGCCAATTTGCAACCCCCTCATCTCCTTTGAACCACATGATGAGCTAGAAGAACTGTAACAGTAACGTGCACCTGGATATGGACAATAAAATTTTACTATTAGAAAATTTAACTGAATAATTTATTATTATTTACACATATATTTGTTACATGTAAAATAGATGCATATGAATAAATGCATACATACTGCACAACAGTAAGCTGGGGATTTTCCATTAGACATGCATTCTTAGTTTGCAAAGCATGTTAAATTCATCTGAGTTGTGAGCTGCAACTGTAAAGTGAATTGAAAGCTGGAGATGCCAGATGCTTTAGTATAGAAATTACCATGGTAATGGTTGCTTTCCCCTTAAACTGTACAAGACGTTGTAAGAATCTGTGAAAACAGTTTAATTCTCAGTGCAATGAAACCAAATATCAATACTACTCGAGGAACTTCTCCATTTCCAATGTTTGTGTGGGTTTCTTTAATTGCATCTGTGATGTTTTGCTGTCTCTCTGTCCAGAAACTACTTTTCTCAAGCCTTTCATATTTCTGCAGTCTGATGTCCTGGATATATGTGAATTGCTATTCCTTATAGGAATATTTCATTACGTGATAGATTTTCAGTCTTTAAATTATTACTTTCTAGAGAAAACAGTTGATGATGGACTGATGTAGAATTAAATTATACTCATTTTACAACAGAATTCGAACAGAAGGAGAAGTAACAAGCTACAATGCAAATGGTTTTAGATTTCTGTTCCCAAAGACAATCAGAATGATGTGACTGTCAGCACAGCTGTGGCCAAAGGCTGCCTGGTTCTAAATTCAACACCGCCTCGCAGCGCCATCTGGTGATGCTGAGCTGCACGTTAGACTCAATCTTCAGTTTCTGCGATTCTCTGTTAAAATGGCTTTTAAGTTAGCACACCTAATGCATGCTGTTAGGCATGTGTGCGGTTGCTTTATGTTACTGAAATTGTTATGGTAAGACAGGCTTTGTAGTATATATTTCTTTGAATGGAAGACAGAGGTGAGAACACTGAATTTTCTTATGTACTGTTTTCATGTATCTTTTTCTTTTTCCTCTTAG
Seq C2 exon
GGTGAACCCGGTAGACCAGGACAGTCTGGTGAGCCTGGATTTCCAGGATCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002509:ENSGALT00000003954:11
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(26.6=100)
A:
NA
C2:
PF0139113=Collagen=PD(7.8=27.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]