GgaINT1009972 @ galGal4
Intron Retention
Gene
ENSGALG00000016155 | COL19A1
Description
collagen, type XIX, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2196]
Coordinates
chr3:82338954-82340384:-
Coord C1 exon
chr3:82340331-82340384
Coord A exon
chr3:82339044-82340330
Coord C2 exon
chr3:82338954-82339043
Length
1287 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAT
5' ss Score
7.84
3' ss Seq
GCATAGCCTTTATCTTGTAGGGT
3' ss Score
5.84
Exon sequences
Seq C1 exon
GGCTTACCAGGAGAGCATGGGTTACCAGGAATGCCCGGAGTTAAAGGAGAAAAG
Seq A exon
GTATATTCTAACTGTTCTTCATTAAGATTGGTAAAGTAGAGCCTATTAGACTGTCTTGTGACGACTGTTTCAATTCATCTGTAGTGCATCTGTGCAGCAGCTGTATGAATTGATTTAGAAATGTACAAGCAGCAACTGCCGTCTCCTTGGTTATATTGCAGGCCAGTTTGTCAACCCAATTGCTCTTTAGATTCATAATTTAAGTGTTATTTCAAGAGAGGTTAAGTTGGACTCTTACAATAAAAATGTGCCATGCAGAAATACCAGTTTAAGTTCTGACAATAGAATAGCCTCTCAGTGTTGTGCCCTAACGAGGCTAATGTCTAAAATCATGCTTCATGGCCAGACTTATTCATCTTGGCAGAGCACTGAGGCAGACCTGAGCCAAGTCCGGGATCTCTTTATGGCATTGTATTGTGCTGCGTAGACAGCCTCTTGGTTGGAATGCAGCTACATCAGTAAGAGTTATGTATGTATATGTTGTATGTAGGGAGGGGGAGAAAAGACACTGTACAGGCACATTCTGAGCTATGTGAAGTGTTATGATATTTATACATCTTGGGACACAGAGGAAATTAATAAAATCACTTAACAGCTTCAAGAAAAATAGCAAGCTGATGAAAAGGCAGGAGGGGAAAATAATTGTGGAATAACAACAAAAAACATACTAATCTTTCAAAATGGGAAGTAGTGGAATCAGAAAGAACCACAGGCAGTTATGCAGCAGCATGGACAACATCATAAAGAGCCTCAGATTTACGTGTGTAAGCAGAAGTTGTAGAGATGTGGAGCAAGGTGTGCTGCATGCACTGAAAGGAGAAGTGTGAACAGGAATACAATGAAGAGGGATAGAGAAAGAGGGAGTGAGTCTGACATTCCTACAATGGAGACATCATCAGGGCTTAGTGACAACCTGAATTCTGGGGAGCTGGGGGCATAAGAAATGTAGATCAGATAAATTACAAGCATGGAAAATTGAGAAAATGTTGGTTACTATTATGGGTGCTATGGTCCATGCCTCTTTTCCTGTAACTTTTTGAAGGAAATATATTTTTGATAGAAAATTGAGGCTTTAAATATATTTTCCATACTTACATATGTAGGACTTTCAGAAGTTCATTGGTAGCTGTGAATAATGCATTAGGAGAACAACACACAGGATTTTCCTACCTCCCGAGAGCTGAGTTCTTATAGAGGCAGGGAGTTGAACCTCTGTGGAATTAAATGTGATAAACTTGATAAATCAATGGTAATGATTTTGATAGCTGCATAGCCTTTATCTTGTAG
Seq C2 exon
GGTGACCCTGGCGGGATCATGGGACCTCCTGGACACCCAGGTCCAAAAGGTGAGGTGGGGCCACCTGGACCAAGTCTGCCTGGAAGACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016155:ENSGALT00000026059:24
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(27.0=100)
A:
NA
C2:
PF0139113=Collagen=PD(7.9=16.7),PF0139113=Collagen=PU(40.3=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]