GgaINT0070689 @ galGal4
Intron Retention
Gene
ENSGALG00000010521 | COL25A1
Description
collagen, type XXV, alpha 1 [Source:HGNC Symbol;Acc:HGNC:18603]
Coordinates
chr4:37060784-37061744:+
Coord C1 exon
chr4:37060784-37060846
Coord A exon
chr4:37060847-37061675
Coord C2 exon
chr4:37061676-37061744
Length
829 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
ATGTGTACCTGCTTCCACAGGGT
3' ss Score
8.77
Exon sequences
Seq C1 exon
GGTGAACCAGGTTTCATTGGTCCACAGGGAGAACCTGGGCTGCCAGGGTTACCAGGAACAAAG
Seq A exon
GTAAGGGCTGTTGGCCAGTGCTCCAATGTAAAGCCCTTGGAGCCAAAGTTAAGTTCAATTTTGTTAGCAGGGATCATGTCAGTGGTGTAAAAATCTTTTAGCCACAAATAGTTGTCATAAGATGGCCAGAATCCATTTTTGTAAATGGACAGCAAGTTTAAAGTTTAGGTTAAAATATAGTACCTACAGTACCTGGAAATGTGAAGAGTTATATTTCATGGACTAATGCAATGAAATACGTTCCTTTGTAGTAATGCCCTCAAACAATGTAAAGGCGGATACTTTATCCATTCATAATTTAATTTTATTCAGTGACTTTGTTTAATGTCAGTATCCCAAAAGTCACTTGTTCAAGAAGCAGAATATGCCTGCATGAAGAAACTATGTTCTCATAACTTTTTTAGAAAAAATCTTAGAAGTTTGTGCAGATATTAGCACTTTGATAACACATACCACACTGTAAAATACAGTGTCATTAAACATAGGGTTTTTTTGGTACTACATACAGGTTTTTTCTTTATCTGCTCTGTGGTGAAGTTAGCATATTATGAGTCCTGTGAATAGTATTCATTGTTTCATAGTTCAGGAATCTTCGTTCCACTTCCTTCAGAATAGGGAGGGAAATAGCTTTATAGGATCCTATATAGATTTCTAAATCTTATTTTTGCATTTGAGAGCACTGTGTTTACTCAAGGAAGAGTTCCCCACGTTGTAGATAAGCTCAAAAGTGTTTTCTTCTGATGTTTTGGTTTCTTTGACATAACTGAATTAATTGCATGCTAAAAACTGCCCAGTGTTTTGGTTGATATATGTGTACCTGCTTCCACAG
Seq C2 exon
GGTGACAGAGGAGAGGCAGGCCCTCCTGGGAAGGGTGAGCGAGGTGAAACTGGACTTCCAGGACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010521:ENSGALT00000017084:18
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:
NO
A:
NA
C2:
PF0139113=Collagen=PU(26.7=69.6)
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]