GgaINT0047771 @ galGal3
Intron Retention
Gene
ENSGALG00000009362 | ITA6_CHICK
Description
NA
Coordinates
chr7:19106503-19107356:-
Coord C1 exon
chr7:19107146-19107356
Coord A exon
chr7:19106697-19107145
Coord C2 exon
chr7:19106503-19106696
Length
449 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGG
5' ss Score
6.23
3' ss Seq
TTTTTTTCCCCTTCTTTAAGATG
3' ss Score
9.65
Exon sequences
Seq C1 exon
GTTTCTCTTTGGATTCTGGTAAAGGAATTGTCTCCCAAGATGAGATGACTTTTGTGTCTGGTGCACCAAGGGCCAACCATAGTGGAGCAGTTGTTTTACTGAAAAAGGAGAAAAATCAGAGAGCGCTTTCACTGGAGCACATGTTCGAAGGAGAAGGGCTGGCCTCTTCTTTTGGTTATGATGTGGCCGTTGTGGATCTGAACAGTGATGG
Seq A exon
GTATGGCCTTGGTTAACTCATGCTGCCTATATAGGATAGCAGACTGACTTATTTCTGCTTTGGTTTTTACTTTTGAAGTGTAAACAATCTTACATGTTTTGCTGGAGGAAATGGCGAGCGTGTCAGAAAGTCACGCCGAATGCAGTCTGTGTTCTTAATTACAGAAATGAGTTGTACTCGAATTCATAAGATTAGTGTTAACAAAGAAGAAATAATACCAAAGGAAGGCCCAGTAAGTTTCTTGTGTGTGATGGAGGGAGTGTAAAAGGCTTGCAGTCTTAGTGGATCCTCTGCCAGCTGTTTTTGCATGACTAGTTGAAAGTACTTTTTAATCACCTTTGTTCAGCAGCGGGGGTTGACTGTGACCTTGAGACTATAGCCTTTATCAGTTACTTTTTAGAGTTCTTCAGTACGAGCACTGTTTTTTCTTTTTTTTCCCCTTCTTTAAG
Seq C2 exon
ATGGCAAGATATTGTGGTTGGAGCCCCGCAATACTTTGATAGAAGTGGAGATATCGGTGGTGCTGTGTACATCTACATTAACCAGCGAGGCAAATGGGAAGGAATAAAACCTATTCGCTTAAATGGGACCGCTGACTCGATGTTTGGTCTCGCAGTTGAAAATGTTGGGGACATTAATCAGGACGGATATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000015247:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF135171=VCBS=PU(6.7=7.0)
A:
NA
C2:
PF135171=VCBS=FE(86.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGTGTCTGGTGCACCAAGG
R:
TCCGTCCTGATTAATGTCCCCA
Band lengths:
348-797
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]