GgaINT0092708 @ galGal3
Intron Retention
Gene
ENSGALG00000007588 | F1N890_CHICK
Description
NA
Coordinates
chr2:16179907-16181230:-
Coord C1 exon
chr2:16181123-16181230
Coord A exon
chr2:16179997-16181122
Coord C2 exon
chr2:16179907-16179996
Length
1126 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
CACTGTTATTCTGTGCTTAGCCT
3' ss Score
5.6
Exon sequences
Seq C1 exon
GGAACCACGGGATTTGAAGCACAAATTGATAAGTGCTTGGAACTTGCAGAATACCTGTACAACAAAATAAAGAACAGAGAAGGGTATGAAATGGTGTTTGATGGAAAG
Seq A exon
GTATGTACTATAACTGCTTTTTTCCCAATTGGTCACCTGAACTTACTGTATATACCAGGACACTGCCAACAGGTCAAACCTACAGCACATGATGGCACACAGTGCCCTTGTATCAAAACCTGTTGTTGTGCTGATGCTTTCTTAGACGATCCAGGGACAAGGCATAACTTACCAGTTTATACAGTGTCACCCCACTGAACCTAAACAGTGACATCTCAGGATAAAGCAGAACACACACAGTCAGAACCAGCTTTCAAGCAGCAAAAAGCAGTTGTCGTTTTGTAATTCCAGGGTCTGTTAGGAATGCGGGTTGCAGCACGACATGGGGCTGGTGCTGCTTGGGCTCATGTGGCAGCAGTGACACCACGTTCCTTCAAGCATGTCACTATGCAGTTTATTTCCCACACCTTGCACATCATCACTGAATTTGGTCCATCGAGTCTGATGATGGGTAGAGATACTGACAGCAGTCAGAATTGCTGTAGCTCACACATTCAGCATAGAGGAACACAGCAAGGAAAGCAACTGCTGGCAGACTGCAAAAATACACAGAATGTCAACTAATTCTGCCTTTCTGTTCAGTGCTCCCACATTAAGTTAAACTAATTAAGATGCTGTTATGCATGCATATTAATACAGAAGCTAGTGGAATCAAACAGAGCAGTAATAAATTTTATTATATATACAAAAATGTTAGACTATTTCATGTACCACCTGTGGCTACTGTTTACAGGACTGGATCCTGCATTATGCTGTCATGTAATAACAGTAAATGAGAGAGTCCTCACCTCTAAATTATCTCTGATAGTCTCTCACCTTATCCACGTATTCCCTTCAGCCTCCTGGGGGAACAGCACCTACAAAATCTAGATGCTTCTCAGCAGAGGGTAAATATATTTGCACAGCTGGGTGATGTATTTCTGCAACTGACATCCTAGGAATAAATTGCCTAAAATTATCCTTTCTGCATTAATAACGATGATGACTCTCAGTGGACCACAGTAATGAAAACCATTCATTGCTGTCACAATATGATGCATGAGAGGGGGAGAAGGCATGAGCTTAATTGCAACTGAGGTATTGTGAGCGTTTCTTACAGTGTAAACCACTGTTATTCTGTGCTTAG
Seq C2 exon
CCTCAGCACACAAACGTCTGCTTCTGGTATATACCTCCCAGCTTGCGCGGCATGGAAGACAATGAAGAAAGGATGAGCCGCCTCATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007588:ENSGALT00000012268:11
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:
PF0028214=Pyridoxal_deC=FE(12.4=100)
A:
NA
C2:
PF0028214=Pyridoxal_deC=PD(2.7=33.3)
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:
GGAACCACGGGATTTGAAGCA
R:
CTTCATGAGGCGGCTCATCC
Band lengths:
198-1324
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]