GgaINT0072516 @ galGal3
Intron Retention
Gene
ENSGALG00000014372 | Q6TQF9_CHICK
Description
NA
Coordinates
chr4:75884660-75886206:-
Coord C1 exon
chr4:75886082-75886206
Coord A exon
chr4:75885330-75886081
Coord C2 exon
chr4:75884660-75885329
Length
752 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
TCAAATGTTTTTGCTTTTAGATT
3' ss Score
9.55
Exon sequences
Seq C1 exon
GCATTGGTGTTATAAGCATTGAGCGTTCTTATCCCCTCACCCTAGGAGCTAACATTGGCACAACCACAACAGCTATACTTGCAGCTTTAGCAAGCCCAGGGAGTACATTAAAATATTCATTACAG
Seq A exon
GTCAGTATAAACCAGTGCTTCTTTGAATTTATTTAGAAGCTGCAACTTTTCTGAATAAAAGCCTGACAAAATTAGTTCTGATACAAATATGTCCTGCATATTGAGCTCGATTCTATGTGTGGTACTAATCATGGCTCATTAATTTCAGCTACTAGAGCAAAAAAGCTTCTATTACGCATTCCTAGAGTATCAATATATAGTAAAATCTTTCCTAAATTTAGCTTGATCTGATTGAATTAATTCAGAAATCCAGCAGGATTGGCCACTTGACTGCAGAGCATTGAATCTCAACATCTTTGAATTCAGTGCCCATATCTGACAACTCTCTTAGGTAACCCTCTTTGAAGGTTACTGATATCTGTAAGTTCCTTGCTTAGGATCCTGACAGTTGCTTGCTTTACCAGCTTTATTTCTGGTGGATTCAATTTATTTCAGTACAGTGTTGCATTTTAAAACTTCTCTGTGTGCAGGGAGATATCTTGACTCCGTTGGGCTTCTCTCGTTTCCAGATGCTATTGGCCAGTGGCCTATTTATCTTCTTTGATCTATAGAATGTGTGAAGTACTACCAAGACTTTTTTTCATGCTAGGAAAGGCCTAGCAGTGAAATAGAAGCAAAGACAAAAAAAGATCAAAGTGAGGAGCAAGAGAAGGGAAACTATGAAGTCATTACCACTGGAAGTTATTACTGTGTGGGTAGGGCTATTTAATGTCATTTGAGGTAATTAACTTTTCAAATGTTTTTGCTTTTAG
Seq C2 exon
ATTGCCTTGTGCCACTTTTTCTTCAATGTCTCTGGGATTATCCTGTTTTACCCGCTGCCTTTTACCCGGCTGCCAATCCGCATGAGCAAGAGCTTGGGAAACATAACAGCCAAGTACAGATGGTTTGCTATATTTTATCTTCTCATCTGCTTCTTTCTTTTGCCTTTGTTTGTATTTGGTCTGTCACTGGCGGGCTGGCCAGTTCTTTTGGGTGTTTGCCTTCCCCTGCTGGCTCTGTTTATTGCGGTGATTGTAATTAATATTATGCAGACGAGGCGGCCACATTCACTGCCTGAGAAGCTTCAAAACTGGGACTTCCTACCCATCTGGATGCACTCCCTAGAGCCCTGGGACAATATGATTATGTCTTCACTCGCCTTTTGTGGGAAGCATTGCTGCGGATTCTGCAAGTGCTGCAAAGTCAATGCAGAACAGGAGGGTGCCAAAGATAATCAGCTAAAAACTATGGAGGTTTATGAAAACACCATTGCAATGGCTGATGAAGAAAGAGGTGTAAGAAGGGCTCCAGCTGCAGCTTGTGTTGAGAAAACAGGCACAAACAACACAGCCTTATAGTAGCGGATCAACCCATAAGCAGAGGTAAAGCATAGGACAGTCAGGCTCTTGAAAACTACCTTGAACAATGCACTGAGAACAGAGTGAATATTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014372:ENSGALT00000023222:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.004
Domain overlap (PFAM):
C1:
PF0269010=Na_Pi_cotrans=FE(29.3=100)
A:
NA
C2:
PF0269010=Na_Pi_cotrans=PD(22.1=16.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCCCTCACCCTAGGAGCTA
R:
CCGCAATAAACAGAGCCAGCA
Band lengths:
342-1094
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]