GgaINT0008834 @ galGal3
Intron Retention
Gene
ENSGALG00000007354 | CIT
Description
NA
Coordinates
chr15:9893098-9894331:+
Coord C1 exon
chr15:9893098-9893267
Coord A exon
chr15:9893268-9894250
Coord C2 exon
chr15:9894251-9894331
Length
983 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
GTTCTTTCTGTTATTTACAGAAG
3' ss Score
8.2
Exon sequences
Seq C1 exon
ATGTGCCATATATCCTAAAATTGGAGTCTCATCCACACACCACTTGCTGGCCTGGTAGAACACTCTACCTGTTAGCACCCAGCTTCCCTGACAAACAGCGCTGGGTCACAGCACTGGAATCAATAGTGGCAGGTGGGAGAGTTTCCAGAGAAAAAGCTGAGGCTGATGCT
Seq A exon
GTGAGTATAAAAGTTTCATTTAATAATAAATATTCTGGGAGGGAGCAGAGTTTTGAAAAATGATTTTTTGGTATTTGACATACTGAGGTTTAACTGAAGGTAAGTTCTTATTTCTGCCTTAAGACACACAGTATGAATACTAGGAGCTAGTTCATTGTGAAACTGGTACTTTATATGACAATACACCCTTCTTTAGGCTTGGGAATGCAGTGAGAGGACTCAAAAATTGTATCTCTCCAATTCCAGCATACAGCAAAGTAAGAAAGATCAGTTTAAAACATGTTTAAGTTTAAATCTTATCTTATAATGTACCATATGGAATGAGCAAGCCTTGAAAGAAAGAAAGAAAGAAAAAACAAAGAGCTCTTTCCTAAAGAACTGAGGTTTCTTTTTGTTTTGTAGCAGAGAGGAATGTGTTTGTTTTTTACTTTTAGCTTTATTCCTGATAAGGATAAAAGTTTAAATTGAGTTGTTAAGACTTTGGATAGCCTTTTGTCATTGCTGTGCTGATAAATCTATTTTCTGATGAAGGGAGACTTGATTCTACGGCATTTCATATTAAAATGTTGGCTCTGGAAGTAATGAATATCGGATTAGGAGGAAATCATCTCTCATGCTAACATTTCTTTCATCTCTGGGAAAATATATGTTCTCACTGGCATTTGGACATCCTTATCCTTCTGGAAAAAAAAAAGTCAGTGCTCCATTGCAGAAGATGGAGGGAATTGGAAATTACAGGGATAACAACAGATTGTACATGAGTTTAATTCTGATCAGTTTCTGACTGCATTTCAGGCAGCTGAAAGTTTACTAATTCTTTTGTAGGAGAGATCCCTGCAACGTTTAGCTTTATCCGAAAAGAAAATCTATACTAAACTTTTTATCCCGTCTGAAATCATGATTTTGCATTGCTAAAATACAGTTGGAGAAGCAGAGGAGGTTTAACTTACCAATAACAAGGAAGTTCTTTCTGTTATTTACAG
Seq C2 exon
AAGTTGCTTGGGAACTCCCTGCTGAAGCTAGAGGGTGAGGACCGTTTGGATATAAATTGCACAATGCCCTTCAGTGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007354:ENSGALT00000011895:37
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:
PF0016924=PH=PD(35.8=75.4)
A:
NA
C2:
PF0078017=CNH=PU(2.5=25.9)
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:
TGTGCCATATATCCTAAAATTGGAGT
R:
TGGTCACTGAAGGGCATTGTG
Band lengths:
249-1232
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]