GgaINT0125849 @ galGal3
Intron Retention
Gene
ENSGALG00000004165 | TOR1A
Description
NA
Coordinates
chr17:6256661-6258820:-
Coord C1 exon
chr17:6258693-6258820
Coord A exon
chr17:6258057-6258692
Coord C2 exon
chr17:6256661-6258056
Length
636 bp
Sequences
Splice sites
5' ss Seq
ATAGTGAGT
5' ss Score
6.97
3' ss Seq
TCTTCTCTTTCCTTTTGTAGGTG
3' ss Score
13.17
Exon sequences
Seq C1 exon
CAACGCCGGAGCTGAAAAGATAACAGAAGTGGCACTCGATTTCTGGAGAAACGGGAAGGAGAGGGAAGATATACAGCTCACAGACATGCAGAACGCGCTGTCTGTGTCTGTCTTCAATAACAGAAATA
Seq A exon
GTGAGTAAAGCTTTTGAGGCAGTCAGAGTCCCATAAAAATGTCAGTCAGCCATCACTGCACGCACTCTATTTCACAGTAATGGTTTCTGCTTTATGTGGTCTTCAGTTTTTGGCCTCTGGAGCCGCAGAGCAATTTGTGGCCAATGGGACAGCTCATGTGATGAATTAGAGCTAGGACACCTGTGTGCACCTTGTTTGATGGCTGTGGGTTACATTTGTTAGGGGAATTCTGTCCTGTGTATTTGTTGATGTACTAAAGAGAAGGCAAACAAAATAAATATAAGGCCGGATGCAAGCTCTCGGGGAAAAAAAGGAGCAGGACAAGCTGGTCTATGAGAGCTGATAGCAGAAAAAATAGGATCTTCTCTAGGTGAGAGAGGTGAGGCTGTGAGAACAGCATCTGGGGAGCAGGGCTTAAATGCAGTCATTCAGAAGAGATCCAACAGACCGTGTTTGTGTGGCTGAGAGGATGCAGAAGGTATGCGACTAGGCTTCATTTTAGACTGACTTGTGCTTTGTAGGGCCCTAAAAACACAGATGGATTCTCCCTGGTTTGTTGCAGGGGCTGTGATATTCACCCCCTGGCAGCGTTTAACTGGAGGAGCAGTAACAAAGCTCTTCTCTTTCCTTTTGTAG
Seq C2 exon
GTGGATTTTGGCACAGCACCTTGATTGATAGAAATCTCATTGACTACTTTGTTCCCTTCCTGCCTCTGGAATACAAACATGTGAAAATGTGTGTCAGGGTTGAGATCGAATCCCGTGGCTACGCTGTGGATGAAGACATTTTAACCAGAGTAGCAGATGAGATGACCTACTTCCCCCGAGAGGAGAGGATTTATTCAGATAAAGGATGCAAAACTGTGGATGCAAAGCTGGATTATTACTATGACTTATAAGGCTTTCTTGCTGCAACCTGTAAAGAAGCGAATTTAACTTAATCATGAAGTGGAGAACCCGGGACATTTCATTTGTAAGCACTTCTTAAAGGAAGGAACGTTGTTTTAATTGGTATGTAAAGAAGCAGCAGCACCTCTGCATTTTTATTCTGTCACTACTCATGGCTCCCAGCACGGCAGCCTCATGCCATCAAGGTAAGGAAGAGCTGCACTGTGAACTGAGGGCTCTGACGGTGCTGAAGACTTCTCCCACGTGGTGTGGGTCAGCAGAACCCCAGGGCAGGCTGTGGGTACGGATGGTGGGACTGAGGGTATGAGCAAATTGCAATCATTGCTTGGGTTCCTGTGGGTGGTGTCTGGGCAATACAGAGAATCATGATGGAAGTCCCTGTTTGTGAAAGCCTTCCCTGGGCTCGTGTTGGGAGCATTTCTGGAGCATTTCTCTAATGGCATTACGAGCAGATGTGTGTTTCCTCAGCCAGCTTGGCTCCAGCAAGAAGAAGGGCAGATTCTGTAATTAATATATATGGATGTATATTGGTATTGCACATCATTGGAAAGAATATCTTTCTCAAAATAGCCACATAAACTGGTTTTCTTTGAGTCAAAGTTAAGAATATGAAACTCTTTGGTGTCAATAGTGTTCAGTAGGAGGACTTAATGTTTATAGAGAGAGATGAGTTGAAAATCCCTGGCTGTCTCATCACTGGGGTTGGTCCCAGTTTTGGGTTATTTCTTCGATGGCTGAAGTTGCCTGCCATGTGCTCTCCCAGGTGTGATCTGCCTAGGAGGAGAGCAGTGTGCTTTGTGCCTGGTGAGCTGGCTGCAGGGAAAGGCTGGGACTTAATGGGAAACGTGTGCAGGTTGATTTTTACACCCAGGAACTGGAAAAGAGGTTTCTCCTTCCCTATGTAAAGAATTCAGAAGGCAGCTTGCAGGGTTTTCCCTTTTTCCTGTCCTCCCAATGCTGTCTGCCTTTGAGGTTTGGGATGAAAACGGATCCAAATGCATATGGAAAAGCTGTGAAATGCATCACCTGAAGTTACTGCGGTGTGTCAGACTTCTTTCTGAATGTGAGCACTGCAGAGCCTTTTGCATTCCAGTTTCTATTCACAATAAATTCTTCCCATCAGAAACGTGTTCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004165:ENSGALT00000006623:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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:
GAGAAACGGGAAGGAGAGGGA
R:
AGGTTGCAGCAAGAAAGCCTT
Band lengths:
353-989
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]