GgaINT0047736 @ galGal3
Intron Retention
Gene
ENSGALG00000009293 | CHN1
Description
NA
Coordinates
chr7:17963205-17964401:+
Coord C1 exon
chr7:17963205-17963342
Coord A exon
chr7:17963343-17964295
Coord C2 exon
chr7:17964296-17964401
Length
953 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGT
5' ss Score
7.44
3' ss Seq
CATGAACATCTGTGTTTCAGAAA
3' ss Score
7.32
Exon sequences
Seq C1 exon
ATGGGGAGAAGGCTGATATTTCTGTGAATATGTATGAAGATATCAATATTATCACTGGTGCACTTAAACTGTACTTCAGGGATTTGCCAATTCCACTCATCACGTATGATGCCTACCCAAAGTTTATAGAGTCCGCAA
Seq A exon
GTATGTATAATGCATTTTCCTCCTTTTCTTCTCCTTTCTGTGCATGACTTGCCTGTTGATTGAATGGCCGTCCGTGTGAAACTTCCTCTGCATGCCCTATATAGGAAGGATTTCAGGAGTAAATGTGTGCTGCACATTACAACACAGTCGTGTGGTGTTACATGATCGTGGGCACATTTGTCTTCCCCTTTGTTACCAGCCATGCTTCCTTTCCCTCACACATCACGGATTCCATCGCTTTGCATGTGCTGTGTCAGTTCCTAGTACTTGACAGGGATATTTAAACTCTTTGTTTTTGTCTTGCTAGAAAGAAAGTGATTTATGAAAATACTTAAAGATAAGAAGCCATTTTCCTCTACAGGCTGATAAGTGCTCACCTTAAGGCCACCATCAAGGCTAGTCTCACAGGTGATGAGTCTGCAAGCAGGGCGCTAACCCAGCTCAGCTGGAGCATCTCTGCCCAGCATCCCAGCTGCATGAGCCATCTGTGGCATTTAGCAGGCCCACCTGGAGAGGCGTGAGAGAGCTGTGGGAAGAAGGGAAGGGCCGGATGCTGGGCTTGCTGCCACCCTGGAGAAGGCTCTTTCCAAGCAGAATGGAGACAGCCAGGGAAGCTGATGGCAAAGTTCCCAGTAGCTTCTGCTGTTCCAGGGCTGCACCTGTGGATTATCTGTGGAAAAACTAGTCCAGTCAGCAAGGTCTGCGAGGGCAGTTCTTCTTAGTAGGCTGCATGGAGTCCTTTAGTGGAGAGCAGTTTTGGGGGGGAGCTTTCTTTGTCCAAAGCAATCACATCCTGACTGTGCTCTGAGCTTCGGATGAGCACATCTTCCTCAATGAAGTTTGGATAGGTCCTGTAAATGAATAGGCCAAGAGAGCTGTGAGGTCCTGCTGTCCTGCAGGCTGCCATTCCTGTCTTCCCATGCGTGTGGTGACCATGAACATCTGTGTTTCAG
Seq C2 exon
AAACCACCGATCCAGATGAACAGCTGGAAATTCTCCACGAGGCGCTGAAACTGCTGCCGCCTGCACACTGTGAAACACTGAGGTATCTCATGGCACATTTGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009293:ENSGALT00000015119:10
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:
PF0062022=RhoGAP=FE(29.9=100)
A:
NA
C2:
PF0062022=RhoGAP=FE(22.7=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:
GGGGAGAAGGCTGATATTTCTGTG
R:
TCAAATGTGCCATGAGATACCTC
Band lengths:
238-1191
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]