GgaINT0135995 @ galGal3
Intron Retention
Gene
ENSGALG00000003709 | E1C209_CHICK
Description
NA
Coordinates
chr22:2762016-2762830:-
Coord C1 exon
chr22:2762635-2762830
Coord A exon
chr22:2762153-2762634
Coord C2 exon
chr22:2762016-2762152
Length
482 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
ATATGCTTTCATTTTTAAAGTTT
3' ss Score
6.64
Exon sequences
Seq C1 exon
CCAGCTGTGGTCTACGGCAGCACAGGGCACGCCAGTACCGGATTAAAGTTGGCTCCTATGCAGACATTGAAGCTCACCCATGGCAAGCTGCCATCTTTGTGAAGTATTACAGAGTACCCGGAGAACATTTCCTCTGTGGAGGAATTCTGATCAGTTCCTGCTGGGTTTTGTCAGCTGCTCACTGTTTTGAGGAAGG
Seq A exon
GTGAGTTGAGGATTTGGTACTTTTTGGTAAATCATGATTAAAAAAAAAAAAGTCTGGAAAATGGAAGCATCCAGTATTAGCCTTACTGGAAGAGTGAAAGACTTGAAAAAGACATTTACTCCACTAGGTCATTCTACAGTAAGGAACTGTAGTTAAATGTGATCAGTGTTACAGACAGGCAAACTAGCTGTATGGCATTGAAGTACCACAGCAGAATATCAAATAGCTAAAGAACAAAGCTGTCAGCACAGAATGCAGAGCCACATGAAACTTGCCAACAGCAAGGAACTTACAGAGGATCTTTGCCATGGTGGCTCTAAGCAATTAGTGCAAAAACTAAAGCAAATAGGACATCTGAGATCAAACTGCCTGACTGATGAAGTAGTAATTATACTAAAATAAGAGAAGCTCCAACAGCACGTCTTCAAGGAAAGGCTCTACTCCAGTTAATACTGGAAGTAAATATGCTTTCATTTTTAAAG
Seq C2 exon
TTTTAGTACTAATCAGCTGAAGATTGTGCTGGGCAGGACTTCTCGAGCAACTCCAGAGGAGAAGGAACAAAAGTTTCAGGTGAAGAACTACGTTGTACATGAGAGATATGACTCAGAGAATTACAACAATGATATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003709:ENSGALT00000005886:9
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:
PF0008921=Trypsin=PU(21.2=77.3)
A:
NA
C2:
PF0008921=Trypsin=FE(19.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGGTCTACGGCAGCAC
R:
TCTCTGAGTCATATCTCTCATGTACA
Band lengths:
311-793
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]