GgaINT1004845 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:R4GMH5]
Coordinates
chr3:44664009-44665329:+
Coord C1 exon
chr3:44664009-44664202
Coord A exon
chr3:44664203-44665180
Coord C2 exon
chr3:44665181-44665329
Length
978 bp
Sequences
Splice sites
5' ss Seq
CTGGTAACA
5' ss Score
4.6
3' ss Seq
CCTTTTCCCTTTTTTCGCAGACT
3' ss Score
11.07
Exon sequences
Seq C1 exon
GGATTTGAGGGAGAACTATTGTAGAAATCCAGATGGTGATAGCCGTCCATGGTGCTTCACCACAGACCCCAGCGTTCATTGGGAGTACTGCAGTCTCAAGAAGTGTGATGATCATACTGAGGAAGCCACACCAAATGACCCCCCTGCAACAGTGGCACAAAATGTTGGCCTGACTATCCCCCCCACGACATCTG
Seq A exon
GTAACAGCTGGCATTAGCTGTCACCTCCACTACAGTCTATGGATCAAACAAATGGCAATCTAACACAATTATTCTTGAGTAGTGCTACAACAATACAGGCACATCTCTTCTCTGCCAGTCACAACTGTGTTGTTGAATTTTGCAGCAAATTCTCCTTAACCAGAGTATATCCTGCAGCCTGTAACATTTTACAGTGCATTCTATGAGATATCGTGTTTGTTTAGGAGAAGAATGAAAATAGAGAATGCTTCTAGTAGCTGTGTGCTATTGAAATACAATGATAATAAATTTTCAGGGAATTTTGTTCGTGCCTTGCTTTACTGTTTTTAGGAGGTTGTCCTTATCTTCTTGTATCTCTTCATGGGCAACTGTGTTTTTCAAAATGTATACACCCAGAAAAACGGTTTTTGCTCTATCCTTCTTTATTGTTTCCTTAATTAATAATCAATGTTGATCAATGCAGTGTGACTTTTCTGAATGCTCCATAGAGTGTCCACTGAATATTTGTGTTGCAAAGGAGAGTGACAGGGCTGGATAAAAGATTCATTCCTAAAAGGCACTGTGTACTCTTACATGCAGAAGGAGGAAGTACCTGAAGCAACGTTCTTGGAGACAACAATTGCTTTCTCAGTGTAATGGACTGCAAACTCTTAAACATGATTTTCTCATCAAAGCTGCTGGCTGATTTTAGTTTAGCCAGGATCTTAGAGTCTTCAGATGTTGCAATATGCTTCAGAAAAGTGTCAGCCTGAAGTTCCTTGAATATATTATTTTGCAGTTCAATTATTCTGTATGTCCAGGAGAACAACTTGACAGGCAAGAGAATACAACACATGGTACATCTTTGCCTTTCTGCTGAAGACAGTAGAGAAGGAGGAAGTCCTAAAAGTACTTTATCTGGCTTAGTTCTGCTTTCTGCAACACCAGCACATATAGATTCAGTAGATAATAATCATTTCCTTTTCCCTTTTTTCGCAG
Seq C2 exon
ACTGCATTAACAGCAATGGTAAAGACTATCGCGGCACAGTAGCAAAAACTGGAAGTGGCAGAACTTGTCAAGAGTGGAGTTCTCAGAGCCCTCATAGCCACAAATACTTCACTCCTCTCACTCATCCAAGGGCAGGCCTGGATAAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028886:ENSGALT00000044267:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.140
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(44.9=53.0)
A:
NA
C2:
PF0005113=Kringle=PU(60.0=96.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATTTGAGGGAGAACTATTGTAGA
R:
TTTTTATCCAGGCCTGCCCTT
Band lengths:
342-1320
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]