GgaINT0008843 @ galGal3
Intron Retention
Gene
ENSGALG00000007354 | CIT
Description
NA
Coordinates
chr15:9900307-9901441:+
Coord C1 exon
chr15:9900307-9900486
Coord A exon
chr15:9900487-9901137
Coord C2 exon
chr15:9901138-9901441
Length
651 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
CCATTATTTTTGAATGACAGCAG
3' ss Score
4.16
Exon sequences
Seq C1 exon
AACTCCTGCACGAGCCCACTTGGAGATACCAAATCCACGGTATCTAGGGCCTGCAATCTCATCTGGAGCTATCTACTTGGCCTCCTCCTACCAAGATAAATTAAGGGTGATCTGCTGTAAGGGCAATCTGGTGAAGGAGACCAACAATGAGCACCACAGAGGATCTTCTGCTACACGCAG
Seq A exon
GTATGGTTAATTTGGTGTGTTATGGTCCTTGTGTAAGCAAACTCGCTCCAGATATCCTTTCCCCCTTAGATGTTTGTTGCCCTCACTTCATTCTTGGAGACAGAGGCTAGTGTTAGTTAATGTAGTGCTGGAATGGAACAAGAAACGTTCCTCATGTTTTAAAATCCAGAGCACTGAGAAACATGAGCTCTGTGGGAATCTCTGGCGAATCTCTTCCTTAAACACAAGTAGAGGATGTTTTGAGCTCTTCAGCTGTTTTATGTTGACTGTGACTTCAAAACACAGTGAGTTCAGGTTGCGATGGTGTGACACTAAATATCGACTGTAAGAATCTCTAAATCAAGGGTCACATTCTCTTAAGGGAGCACGCAGAGAGACAGGGTTCAGCAGGCCAGTGGCACTTCAGACAGGTGCATAAATGCCACGGTTGATAGTACTGCTGGAAACTGAAAAATCAGGATGTGTAGCTCATCTGAACCTGGCCTAGGCCTCATGGATCCATCTTTGCCCTTTTGAGCACGGCTTAGGGAGGTCTGATTTTTCACATGAACGCTACTAGATATTTCAGGAAAGTTACATTTTTGCTAAAAGGAAATGTAACATGAGGTTTTTGTCGCTCAGCTGTTCGCGTCCATTATTTTTGAATGACAG
Seq C2 exon
CAGCCCTAACAAGAGAGGTCCGCCCACATACAACGAGCACATAACCAAGCGGGTAGCGTCGAGCCCAGGACCACCGGAAGGTCCCAGCCACCCTCGAGAACCAAGCACACCCCATCGGTACCGTGAGGGCAGGACAGAGCTGCGGAGGGACAAGTCACCTGGGCGACCACTGGAGAGGGAGAAATCTCCAGGCCGGCTTCTGAGCACCCGCAGAGAAAGGTCCCCTGGAAGACTGTTTGACGAAAGCAGCCGAGGACGGATGCCTGTGAGTGGTGCCAGAACTCCTCTTGCTCAAGTCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007354:ENSGALT00000011895:46
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.328 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0078017=CNH=PD(5.7=26.2)
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:
AGGGCAATCTGGTGAAGGAGA
R:
AAGAGGAGTTCTGGCACCACT
Band lengths:
350-1001
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]