GgaINT0117954 @ galGal3
Intron Retention
Gene
ENSGALG00000011894 | F1NJG4_CHICK
Description
NA
Coordinates
chr1:51299115-51300399:+
Coord C1 exon
chr1:51299115-51299256
Coord A exon
chr1:51299257-51299642
Coord C2 exon
chr1:51299643-51300399
Length
386 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
ATGAACATTCCTTCTTGCAGGTC
3' ss Score
9.98
Exon sequences
Seq C1 exon
GGGACGACAATCATCACCAACTTGACTTCAGTACTTAAGGATGAGACGGCCTGGAAGAAGCCAAATGAATTTTACCCTGAACACTTTCTGAATGAGAATGGGCAATTTGTGAGACCAGAGGCCTTCTTGCCCTTCTCTGCAG
Seq A exon
GTAAATCTAAGGGGAGGACCTAGCTGTAAGTCTGGTGCACAGCAAGAGTGGTGGTCTGCCTTCTGGGAAGTAGAAGTCCAAGGGTTGTCCTTTTCCTCATCTTTGCATTTGAGCAGGGAGTAAGACCTGCAGGGGACCCTTTCAACCTTAATTATTCTGTGACTGTGCCTGAGAGACGTGATGCACCATCTAACTAATTCACTGTGAGTCTCAGCCTTTTTGACATGGTTAACAAAGCAGTCTCACTTTCTTCCTTCTCTCCATCCAGAGCAAGGAGGCTTCTGATTGTGTTTTGCTCCATCCTTTGTCTACACACAAAGGGTGTTCATCTCACAGTGATTTCAGCATGGTTATGTGTCCTCTCTCATGAACATTCCTTCTTGCAG
Seq C2 exon
GTCGACGTGCCTGCCTGGGGGAACAGCTGACCAGGATGGAGCTTTTCATCTTCTTCACCACTCTCATGCAGAAGTTCACCTTTGTGTTCCCTGAAGATCAGCCCAGGCCACGAGAGGACAGTCACTTTGCTTTTACAAACAGTCCACACCCATACCAGTTGCGAGCTGTTCCAAGATAAGTGTGCTCAGCTTCACTCAGAAACCACCAACAGTCAGAAATGTTGCAGAGCTATGCAGATCATGCCAGGTTCTAGACATCCCAAGTCTGTGCAGATGTCCCCAGCTGTTTAAAGTAAGGATGTGGCTCAGTATCCTTAGCTTAGCTTAATTTCAGTTTTAGTCCTGAGTTCCTGCGTATTGAAACACAAAGAGTATCCATGGTAAGAGATAACGTACTGATTCTAAGAGCAAAAAACCTTGGAAAAAACTGTAAAGTGCTGCTGGGCACCTCCCTTCCCTGCTGGCCACTCTCTGCCCCTGGTGCTCTGCCTCTGCCTGCCCTCCAGGTGCCCAGGAGGGCTCTGGCTTGATTCCTGCAAAAACAAGGCTCAGAATGTCAAGTGATTTGGCATGTGCTGGTGGTGGGCAGGGTGAGAGCTTAAGCACTTACAAAGTCACATTTCCTGCCGGGACTACGCATGGCTTCAGAGTAGTGCTCCTGACCATGCAATAAACACAGACTCCATGCATTACTTCATGTTTACTGCTTACTGCAGTTTATTGCATACATACTGCATTGCCTTCATTTACTAAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011894:ENSGALT00000019412:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.119
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(10.2=100)
A:
NA
C2:
PF0006717=p450=PD(12.0=91.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCTGGAAGAAGCCAAATGA
R:
TGGGATGTCTAGAACCTGGCA
Band lengths:
357-743
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]