GgaINT0125854 @ galGal3
Intron Retention
Gene
ENSGALG00000004180 | TOR1B
Description
NA
Coordinates
chr17:6250585-6252285:+
Coord C1 exon
chr17:6250585-6250850
Coord A exon
chr17:6250851-6252109
Coord C2 exon
chr17:6252110-6252285
Length
1259 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CATTTCTCACCTTGTTTCAGGAG
3' ss Score
8.98
Exon sequences
Seq C1 exon
CGCTGCGGGAGCAGCTGGACGGCAGGCTGTTCGGGCAGCACCTGGCCAAGGAGGTGGTGCTGCGGGCGGTGACGGGCTTCAGCAACAACCCCAGCCCCAAGAAGCCGCTGACGCTGTCGCTGCACGGCTGGGCCGGCACCGGGAAGAACTTCCTGAGCCAGCTGCTGGCGCGGCACGTGCACCCCGCCGGGCTGCGCAGTAAATTCGTGCACCTCTTCCTGGCCACGCTGCACTTCCCGCACCCGCAGCGCGTGCCGCTGTACCAG
Seq A exon
GTGAGAGCGGGGCGGCCGCGGTTGTACTGCGGGGAAGGGGGGGAGGGAAGGGAGCGCCGTTGGGTTCGCGCTGCGGTGGCTCAGCCGCCCTCCCCCGCCGTGCTGTGGTTGCGGCGGTGCCGGCGGTGCGGTTGCTGAAGGCCTCGAGGCTTTGCTTTTCCTGTGCACAGCACGGAGGGATCGGAGCTGCCGATGTCCACACGCCGTGCAGTGCTGTGCTGGGCTGAGGGATGAGAGCTGAGGTGCGATCACCTCAGGAGGCGCTGAGTTCCCAGCCCGCTGCCACATAGAGCCACAGAACGGCCTGGGTTGAAAAGGCCCACAGTGCTCATCAGTTCCAACCCCCTGCTATGTGCAGGGTCACCAACCAGCAGCCCAGGCTGCCCAGAGCCACATCCAGCCTGGCCTTGAATGCCTGCAGGGATGGGGCATCCACAGCCTCCTTGGGCAGCCTGTTCAGTGCGTCACCACCCTCTGGGGGAAAAACTTCCTCCTCATATCCAACCTAAACCTCCCCTGTCTCAGTTTAAAACCATTCCCCCTCATCCTGTCACCATCCACTCTTGCAAACAGCCGTTCCCCCTCCTGTTTATACGCTCCCTTCAAGTACTGTAAGGCCGCAATGAGGTCTCCCCGCAGCCTTCTCTTCTCCAAGCTGAACAAGCCCGGTTCCCTCAGCCTTTCCTCACAGGAGAGGTGCTCAGCCCTCTGACCATCTCAGTGCCCTCCTCTGGACAAGGGCTCTGAGGTCCTTCCCAGCCTCTCTGATCCACTAACTCCATATTCTCTGTGCATCCTTTAGGAACAAGTGGCCATGGAGTGCTGGCTGCTGCTCAGCCCTACTGCACTGTGCCATGGAAGTGTAGATGGGAGAGTTTTCACGTGGCATTCCTCCAACCTGGGGATTTCTCATCTTCACATTCCAGTGTTTGAATGGATGCAGTCGTAGGTGTGGTTTCTGTATGAAAGAGGAAACGTTGACTTAAAGCAAACAGACAAACCGTTGTAGCCAGAGCTCGTCATCTTATCCGTGCACTAAGGAGAAGGAATGAGGAAGTTTGATTTGTGAGCAGGGAAAGAATTCACCTTTACATTCAGTGCCACATCCAAGGGATCGATTGCAGTGTTTATGGTCTTCTCTTTGTGAAGAAGGACACAACCAATGAGGAGGGATGGGGGCAGCTGAGGGGGGTCTCTGGACTCCCTGTGACCACCTCGTGGTACGCCCTCATCTTCCAGCATTTCTCACCTTGTTTCAG
Seq C2 exon
GAGCAACTGCAGAACTGGATTCGGGGCAATGTCAGCGCCTGTGCACACTCAGTCTTCATTTTCGATGAGATGGACAAAATGCATCAGGGCCTCATTGATGCCATCAAGCCCTTCTTGGACTACTATGAGCAGGTTGACGGGGTGTCCTACAGGAAAGCCATCTTCATCTTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004180:ENSGALT00000034684:2
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:
PF063096=Torsin=FE(69.3=100)
A:
NA
C2:
PF063096=Torsin=PD(15.7=33.9)
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:
TGACGGGCTTCAGCAACAAC
R:
TTTCCTGTAGGACACCCCGTC
Band lengths:
353-1612
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]