GgaINT0055935 @ galGal3
Intron Retention
Gene
ENSGALG00000005318 | F1NZZ9_CHICK
Description
NA
Coordinates
chr5:8357713-8358778:-
Coord C1 exon
chr5:8358685-8358778
Coord A exon
chr5:8357858-8358684
Coord C2 exon
chr5:8357713-8357857
Length
827 bp
Sequences
Splice sites
5' ss Seq
TTGGTTTGG
5' ss Score
-1.65
3' ss Seq
CTTTGCTTTCTCATTTTTAGCTA
3' ss Score
10.82
Exon sequences
Seq C1 exon
CTTACATACCAGACTTTTGAAGTAGAAGAGAGTGAAGATTGCTCTTATGATGCTGTTACTGTGTATGAAGATGCGGGAAAAGAGGAGGAAATTG
Seq A exon
GTTTGGCTTTTAATTTTGGCATACTTTGGGGACCTATTACTTCCATGACTTTCAGTAGCCTTCTTTTACAGTGTAAACTGAAATTCACCTCCAGAGTCTCAGGTGTTGCTGTAGGTACTAGTTTCAGTACCTTGCTTGTATTGGTTCTTCTGTTCCTCTTGTGGAGACAAAAAGTCAGCTAACAACAATTGTGTGTATTTAAATTCTATATGGAATGCAATCTGACTTCATGTCTACTAATAAAAAATAATAGAAGGGGGAGGCATAAGGCAGTTAGTTATTTGTTTTTATGTAATATTTATATAGTAACGATGCCAGGTAGAACAGAAAACACCCAGGTGTTCTCCCTTTCAGTATCCAATTCTTCACTCAAGCTGAGCGTTCATGCAGTTCTTAATGCCTAGCTGGAGATTCCTTTGGTTTACCTCAAAAGAAGGAAAGGCCTGTCCCAGTCAAGTCTGATACTGGTACTGAGGTTAGCACTGGCAGATGTTAGTGTTTCAACACTGACAAGGAAACCCAAGTTTCCAATGTAATCTACATGCAGTGGCAACCTATGACTATGAGTGCTGCCATAATATCTTGTGAAATAATGCCAAGAGTCTCTTTGTTCTTATGAGATAATTACTGAACAAAGGGACAGAACTAGTAGAACAGTTGTTCAGCCTCAGTTGGCTTATCTGATCCTCCCTTGTGCATAGTTATGGGTTTGTTTTACCCTCTCATGTAACAACATTCTGTGCATTCCATGGTATGCACTGTTGAAAAAGGTAAATACAAAAAACTACATTTTAATCTGCTGTGAACCTTTGCTTTCTCATTTTTAG
Seq C2 exon
CTAAATCATGTGGATTTGTCCTACCAGCGCCTGTTCTAAGCTCCTCTTCTATGATGCTGGTTGTCTTTCACTCGGATGAAACAGAGACCTTTGAAGGATTCAGAGCTACGATCACTTTTGTTCATGTTACAGGTAGTAGAATTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005318:ENSGALT00000008522:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=FE(28.2=100)
A:
NA
C2:
PF0043115=CUB=PD(33.6=75.5)
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:
ACCAGACTTTTGAAGTAGAAGAGAGT
R:
GAATTCTACTACCTGTAACATGAACA
Band lengths:
231-1058
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]