GgaINT0045567 @ galGal3
Intron Retention
Gene
ENSGALG00000002509 | COL5A2
Description
NA
Coordinates
chr7:516814-518296:+
Coord C1 exon
chr7:516814-516867
Coord A exon
chr7:516868-518242
Coord C2 exon
chr7:518243-518296
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:ENSGALT00000003954:13
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(26.2=100),PF0139113=Collagen=FE(20.5=100)
A:
NA
C2:
PF0139113=Collagen=PD(12.3=44.4),PF0139113=Collagen=FE(20.5=100)
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]