GgaINT0047681 @ galGal3
Intron Retention
Gene
ENSGALG00000010943 | E1C4S3_CHICK
Description
NA
Coordinates
chr7:21125235-21126385:+
Coord C1 exon
chr7:21125235-21125339
Coord A exon
chr7:21125340-21126114
Coord C2 exon
chr7:21126115-21126385
Length
775 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAAA
5' ss Score
2.56
3' ss Seq
TTTTTTTTTTTCCTTCTCAGAAC
3' ss Score
11.8
Exon sequences
Seq C1 exon
TTTGGAGGTCAAGACATATTTATGACAGAAGAGCAGAAGAAATACTACAATGCAATGAAAAAGCTGGGATCCAAAAAACCACAAAAGCCTATACCAAGACCAGGG
Seq A exon
GTAAAATTATTTCTATACATCAGACCAATAGCTTCTTTTGAAGAACTCATTTTTTATCAGTATAGAGAGAGACTATTTGTACTCATGTACAAATTATCATTAACTGGTTTATCAGTTAGCAAAAATGGAAAATGCATATGCTGCTCAGCAAACTATAAGCAACTTATCTTGTTTCAATAACTGTATTTAAAGTTACCTGCTATTCTCTTGGTTTATCATCCATCAGTCATAATACATTATAAAATCCTTATACTTTGAAACTATTTGATGAATTTCTTTTTAATTTCCTGGATTTGCTGTGTTATGTTTCCTGAAAATTTCAAGCAAAAATGTTCAGAATAAAAAGCAACAATTAGTAGTTTGGTCAAAGCTTAATTATTTCCCATTGAATTACTTGAGATCATTTCAAAAGGAATGCTAAGATAGTAAAGTCAAACACTCCAAAGTTGTAATATGAAAGTGAAACTGATAACAGAAAGTGTGTGAGGCAAAAGCTTTCATGGGAAAAGAGATAATGATGAATGATGAACCCGACAGAGTTAAATGTCGTGATTATGCCAGGTAGCATACAAAACAAACAAACAGAAAAACTAAAAAACAGGCTGAACTAATCTGTTGTATTTATTTTGATTAATCTAGTTACGTTTCCTAGATATGTTTTTATGGAAGCCTTATTGGTTTTACTACATATATTTTTCTACTTTCTTCTAATAGGAAATGAAAAACAATTACAATCTGTAATGGTTGTTTTGCTTTTTTTTTTTTTCCTTCTCAG
Seq C2 exon
AACAAGTTTCAAGGCATGGTCTTTGATTTTGTGACACAGCAAGTATTCGACATTAGCATCATGATTCTTATCTGTCTTAACATGGTTACCATGATGGTAGAAACTGATGACCAGAGTAAAGAAATGGAAAATATTTTATACTGGATAAACTTGGTGTTCATTGTCCTTTTCACTGGAGAATGTGTCCTGAAATTAATTTCACTCCGCCATTATTATTTCACTATAGGCTGGAATATTTTTGATTTTGTAGTTGTCATTCTCTCAATAGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010943:ENSGALT00000017814:24
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:
NO
A:
NA
C2:
PF0052026=Ion_trans=PU(20.4=47.3)
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:
TGACAGAAGAGCAGAAGAAATACT
R:
TGAGAGAATGACAACTACAAAATCAA
Band lengths:
347-1122
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]