GgaINT0008825 @ galGal3
Intron Retention
Gene
ENSGALG00000007354 | CIT
Description
NA
Coordinates
chr15:9887513-9888403:+
Coord C1 exon
chr15:9887513-9887617
Coord A exon
chr15:9887618-9888262
Coord C2 exon
chr15:9888263-9888403
Length
645 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACC
5' ss Score
8.55
3' ss Seq
CTCTTTTTTGCTATTAACAGCAG
3' ss Score
7.06
Exon sequences
Seq C1 exon
CTCAATGACCTGGAGAAGAAGCATGCTATGTTGGAGATGAATGCACGCAGTTTACAACAGAAGCTTGAGACAGAAAGGGAGCTCAAGCAGAGGCTTCTGGAGGAG
Seq A exon
GTAACCTTGTAAATTCAAGTTATAACTTCAGAAGGTTCCAAGCTGTGGGGAGGACTGGATAAAACTGTGTCAATAGCAGTATTGCACATCCATCCTTCTCATATGTAACTAGAGAACTAATGAAGATGGAAGTTTTGTTTTTACTTAAAATCTTGCAAAATGTGTGGCCACATCAGGGAGTTATAAAAGTGAACTGCCGTGCAGGGAAAGGTGGGCTGGGAGCCAAGAGTTGACAATAAGGACTCTTCAGCCAGTGGACACAGTCCCACAATACTTGAACAAGAAGAGCAAAGCAGTTCTGGTGATAGAAATTGGGTTCAGCCAGTGTCCCAGTGATTATTAGATAAGCTTGTAATGACAAGGCATGTCCCAGTTCACATCTGCAAGGTAGTGTCAGTGCCCAGACACAGCATTCCTACACCAGGCAGAGGACCATAGCTTATAAACAAGTCTGGAGCCAATGTGCTGTATGTGTGTAGGTGGAGACCACAGACGAAACTTCTCAAAGCTCTCCATAGTTTAGCTTTTAAAGGCTTAATTTTTTTTTTACAAAAAAAAACAAAAACATGTAATAGCTCTTCTTAAAAAAGACAACAACAACAAAAACAAGCAAAAAAGCACACCACTCTTTTTTGCTATTAACAG
Seq C2 exon
CAGGCAAAGCTGCAGCAGCAGATGGATCTGCAAAAGAACCACATCTTCCGCCTCACTCAAGGTCTGCAGGAAGCTCTAGATCGAGCAGATCTTCTCAAGACTGAAAGAAGTGATCTGGAATATCAGCTGGAAAACATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007354:ENSGALT00000011895:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.257 A=NA C2=0.021
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTCAATGACCTGGAGAAGAAGCA
R:
CTGAATGTTTTCCAGCTGATATTCCA
Band lengths:
246-891
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]