GgaINT0101881 @ galGal3
Intron Retention
Gene
ENSGALG00000015140 | F1NJD7_CHICK
Description
NA
Coordinates
chr2:109109318-109110523:-
Coord C1 exon
chr2:109110290-109110523
Coord A exon
chr2:109109516-109110289
Coord C2 exon
chr2:109109318-109109515
Length
774 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
TGTGTTCTCTTCCTATGCAGAAG
3' ss Score
10.2
Exon sequences
Seq C1 exon
GATCACAATATAATTCCTCTACAAACTACTGATCAAGTAGGATCTGGAATAAAAACAGGAGATCAGCAAACATTTGAAATGGTAAAAGGAAGAGGGCATACCTTGGAATCAGTCAGAGGAGGTGGACATCAGACGCTGGGATCAGTCAAAGAAGGAGGAGGGCAGGCTATGGTGGACACGTGTAGATACTCCTACTCAGAATGGCATAATTTCACACATCCTCGTTTAGGAGAA
Seq A exon
GTAAGTATTCCAACACTGGTTTCCTAGCGTGTAGGTTATGATCAGTGTATGTAGTCTTCTCAAGAAAGGCATTTGGGCTAGAAAGGTCTTTGGGTTTTTTTTTTTAGCTTGCTTGTTTTTCTTTTCTTTTGCTAGTCTGCGTCCTGTTTTGGAATATTGCCCTTTCAAAAAGTCATCCTTTTATGTATTTTGAGACATAAGCATAAATGACTCTCTTTTCTTAGCTTAAATTGTAAAAAGTATTTGGTTTTTCAATTAGAATATTTAGCTTCATTGATAATAATTACTTAAACTTTTATGAGTTTATTTTTGTTAATTTCTTTGCTTTTATTCTAACTGCTTGCTTGTGCTAACTTAAACCACAATATTTATCTTAGCAATGGTGTAGGAATGTATGTACAACATTTGAAATGTAGTTACTCCATGCCTTGGGGATCAAAAACTCACTCTCACTACTTGTCTAACTACTTTCGTGTATCGGTTGTTCAGTTTTGAATGGATTTTGGTTGTCTGACTGGTTACTTAAACAGGTTCTTCCTCTTCTATTGTTACATATGTAATTAGTAGAAATGATTTCTTTATTAATATTTATATTTTATAATCTTAATGATATAGACCAATCATGTGCATTTTTTGTATGTAGGAATCCATTAGAGGACACACTCTGATTAAAAATTAATCAATGAAAGGTAAATCAAAAGAAAAATTATTTTTCTGCAATACTTTTAGAATAACAATTTAAGAAAATAAATAATGTGTTCTCTTCCTATGCAG
Seq C2 exon
AAGGTGCATCTATGCAGACAGGATGAAGAACAGAAACATTCTGAAGATTATCTCCTTTCATATAACTATGAAGGAAAAGGATCCTTGGCTGGCTCTGTAGGCTGCTGCAGTGATCAGCATGAAGAAGAGGCACTTGACTTCTTAGATCAACTGGAACCCAAGTTTAGGACATTGGCAGAAACATGTATAAAAAGATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015140:ENSGALT00000024430:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.154
Domain overlap (PFAM):
C1:
PF0104912=Cadherin_C=PU(46.3=73.1)
A:
NA
C2:
PF0104912=Cadherin_C=PD(52.0=97.0)
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:
ACAGGAGATCAGCAAACATTTGA
R:
TGCCAATGTCCTAAACTTGGGT
Band lengths:
357-1131
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]