GgaINT0124316 @ galGal4
Intron Retention
Gene
ENSGALG00000003661 | SETX
Description
senataxin [Source:HGNC Symbol;Acc:HGNC:445]
Coordinates
chr17:6515633-6517741:-
Coord C1 exon
chr17:6517570-6517741
Coord A exon
chr17:6515814-6517569
Coord C2 exon
chr17:6515633-6515813
Length
1756 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAT
5' ss Score
6.38
3' ss Seq
CCTTTTCTTTCTTTGTAAAGAAT
3' ss Score
5.82
Exon sequences
Seq C1 exon
GATCTCTGAAATACAGTCGAGGCCCGGGTACCGGCAGCTGGGATGTGCTGTGCTCTGCTGGAGGGCAGCTGTGGCTGCAGGCCTTAACCCCCGACCCTGAGCACAGGGCAGCCCCGGGCCTTCCCACCATGTGACCCAGAACTCCTGCAGCAAATCGCTTCCTTTTCCAAAG
Seq A exon
GTGAATACCACCGCTGGTGCTTTGTTTTCCTTTCGGTGCATTACATACGAGGAAATGTGTGGTTCTACTGTATCTAGGTTTCACTTTTGCATTCATTGTTATGCTAAATAAGAGCGGTTGCCAGTTCTTATTTTGTGCAACCATTCCAGGTACTCATGCTTCTCTAGAACTAGTGGAGTCTAAGATGGCTGTGTAGTTTCTGTATGAATGGAATGTTTTTTCTGCATTAGAACTAACAAGATAAGTATTTTATTTCATGGTCTCTGCTGTTGTCTGGCATCCTTTATCAGTACTAATAGTTCTTTTCAGGTCCTTTTTATTTCACTGGGGGTCTCTGATAGTCTTTGTTACTTGTCCTTTAGATGAACTTTCTGCACTGGTGCATGCTTAGTAGATACATGAAGTAATTTACAGTCATAGAGATAAGGCAGATGGAGTAATTTATAGGTATGCAGACTGCAGCTCGTGGCTGTCCAGCCATCTGGAATTCTTCTGAGCCTTGAGCTAAAGACAAATTAGACAGCCCACTCCTAAACAGTGTGATAATGCCTTTACAAATCAGAAACCCTTGACAAGGATATCAATAGGCTTGTTATGTTGGAAGGCTGCTGATTTTTGGTGCTGGACAGGCAAGACCCGAGTGATAGAAAATGTAAGGAGGACAAGTTAAATGATTAGCATTATATGTGTGTAGCGTGAGAGGTAGTTTGTGTTTTTGTAGTGGAAGTTTCCAATATTTTCTGTATGTAGTGTGGGCTCTTACTGAACTTATATAACTGTTTTGCAAGAGGGTTATAAGTTCTTTTTCACAACGAAAGCTGCTGAATGGAGTAAAGTTGAGATTGGGGCATTCTGGCTCAGGTAGAATTGACACAGCACAAGATAAGGTAAATACGCAGGGTGGAGAGAGCCTAGCACAGGACAGAACAAATGTGCTAACTTTTGGCAACGTTGCCCTCCTGTTGCCATAGAATAGTACAAAACATTCCTAAAAAACAACAGGTTGGTAACAGACCTTATACGGGGATATATCATAGCAGCAGCATAGTCGAGAGGCTTGTGAGCCTGAGACGCTCAACCAGTGAGTGCCAAGAGGGCATTACCTGCGTCGGGTTTAGGGCATTTAGGAATGAATTTCGCTGATCGGTACGCGATTTCTCGCTTGCCAGGAGGGGGCGTGCGTCCATTATTGGAATAGTGAAAAAGCGTTGCTGCTCTCACTAAGGTCTTTGCATAACTTCAATTCTGAGCGTTTCTCACTGTAGCTAGCAGCAGTTTGTTTAGCCAGTATCCATATGTTTAGTTAAGTGCCAGGAAGATTTGTGAACCTGAAGTACTCATGCAGTGAGGAACCAGGGGAGAAAAAGATAAGCATAGGGTAATAGGGCATAAAAGTAGTAACACTTTCTGCAGGCATGCTCCTGCTTGCAGGATGCCTGCCATTTCAATTGTGTATAGAATCTGCTTTTATCAGAGATATCCAAATAATCTGTCAGGACAGTATTTCCAACAGTTTGAAGACTATTTCATGTGATCTTTTTGTAGTGCTGTGTCTGTGTTTTTAATGTTTGTCATGCAGTGGGCTGTTTTCTGTAATTTTTGTGTAATGTTTTTCACATGCTCTGTTTCTTTGTTTAATTGCATGTGCTGATGTTAGCTAAAACAAACCAGGAGCGGACTGTTATGGCTGGAAGGAAATACTGGACTGCTCTCAGTCGTAAGACTTCTGTTGATTTCCTTTTCTTTCTTTGTAAAG
Seq C2 exon
AATGAACGTATGTCGATGGTGTACACCGAGTGGTCTTGATGCCACTGAATACCTGAAGAGCTATGCTTCTAAACAGTTGTCCCCAGAAGATCTTGAAGGTTCCAACGATGATCTCTGTTACTGCTTGGAGTGCGTGGTGGAATACCACAAAGCAAGGGAGAAATTGCCAAGCTTGCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003661:ENSGALT00000005801:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAAATACAGTCGAGGCCCG
R:
GCAAGCTTGGCAATTTCTCCC
Band lengths:
343-2099
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]