GgaINT0124316 @ galGal3
Intron Retention
Gene
ENSGALG00000003661 | SETX
Description
NA
Coordinates
chr17:7147224-7149310:-
Coord C1 exon
chr17:7149161-7149310
Coord A exon
chr17:7147405-7149160
Coord C2 exon
chr17:7147224-7147404
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
CCCGGGTACCGGCAGCTGGGATGTGCTGTGCTCTGCTGGAGGGCAGCTGTGGCTGCAGGCCTTAACCCCCGACCCTGAGCACAGGGCAGCCCCGGGCCTTCCCACCATGTGACCCAGAACTCCTGCAGCAAATCGCTTCCTTTTCCAAAG
Seq A exon
GTGAATACCACCGCTGGTGCTTTGTTTTCCTTTCGGTGCATTACATACGAGGAAATGTGTGGTTCTACTGTATCTAGGTTTCACTTTTGCATTCATTGTTATGCTAAATAAGAGCGGTTGCCAGTTCTTATTTTGTGCAACCATTCCAGGTACTCATGCTTCTCTAGAACTAGTGGAGTCTAAGATGGCTGTGTAGTTTCTGTATGAATGGAATGTTTTTTCTGCATTAGAACTAACAAGATAAGTATTTTATTTCATGGTCTCTGCTGTTGTCTGGCATCCTTTATCAGTACTAATAGTTCTTTTCAGGTCCTTTTTATTTCACTGGGGGTCTCTGATAGTCTTTGTTACTTGTCCTTTAGATGAACTTTCTGCACTGGTGCATGCTTAGTAGATACATGAAGTAATTTACAGTCATAGAGATAAGGCAGATGGAGTAATTTATAGGTATGCAGACTGCAGCTCGTGGCTGTCCAGCCATCTGGAATTCTTCTGAGCCTTGAGCTAAAGACAAATTAGACAGCCCACTCCTAAACAGTGTGATAATGCCTTTACAAATCAGAAACCCTTGACAAGGATATCAATAGGCTTGTTATGTTGGAAGGCTGCTGATTTTTGGTGCTGGACAGGCAAGACCCGAGTGATAGAAAATGTAAGGAGGACAAGTTAAATGATTAGCATTATATGTGTGTAGCGTGAGAGGTAGTTTGTGTTTTTGTAGTGGAAGTTTCCAATATTTTCTGTATGTAGTGTGGGCTCTTACTGAACTTATATAACTGTTTTGCAAGAGGGTTATAAGTTCTTTTTCACAACGAAAGCTGCTGAATGGAGTAAAGTTGAGATTGGGGCATTCTGGCTCAGGTAGAATTGACACAGCACAAGATAAGGTAAATACGCAGGGTGGAGAGAGCCTAGCACAGGACAGAACAAATGTGCTAACTTTTGGCAACGTTGCCCTCCTGTTGCCATAGAATAGTACAAAACATTCCTAAAAAACAACAGGTTGGTAACAGACCTTATACGGGGATATATCATAGCAGCAGCATAGTCGAGAGGCTTGTGAGCCTGAGACGCTCAACCAGTGAGTGCCAAGAGGGCATTACCTGCGTCGGGTTTAGGGCATTTAGGAATGAATTTCGCTGATCGGTACGCGATTTCTCGCTTGCCAGGAGGGGGCGTGCGTCCATTATTGGAATAGTGAAAAAGCGTTGCTGCTCTCACTAAGGTCTTTGCATAACTTCAATTCTGAGCGTTTCTCACTGTAGCTAGCAGCAGTTTGTTTAGCCAGTATCCATATGTTTAGTTAAGTGCCAGGAAGATTTGTGAACCTGAAGTACTCATGCAGTGAGGAACCAGGGGAGAAAAAGATAAGCATAGGGTAATAGGGCATAAAAGTAGTAACACTTTCTGCAGGCATGCTCCTGCTTGCAGGATGCCTGCCATTTCAATTGTGTATAGAATCTGCTTTTATCAGAGATATCCAAATAATCTGTCAGGACAGTATTTCCAACAGTTTGAAGACTATTTCATGTGATCTTTTTGTAGTGCTGTGTCTGTGTTTTTAATGTTTGTCATGCAGTGGGCTGTTTTCTGTAATTTTTGTGTAATGTTTTTCACATGCTCTGTTTCTTTGTTTAATTGCATGTGCTGATGTTAGCTAAAACAAACCAGGAGCGGACTGTTATGGCTGGAAGGAAATACTGGACTGCTCTCAGTCGTAAGACTTCTGTTGATTTCCTTTTCTTTCTTTGTAAAG
Seq C2 exon
AATGAACGTATGTCGATGGTGTACACCGAGTGGTCTTGATGCCACTGAATACCTGAAGAGCTATGCTTCTAAACAGTTGTCCCCAGAAGATCTTGAAGGTTCCAACGATGATCTCTGTTACTGCTTGGAGTGCGTGGTGGAATACCACAAAGCAAGGGAGAAATTGCCAAGCTTGCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003661:ENSGALT00000005801:1
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
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTACCGGCAGCTGGGATGT
R:
CTGATGCAAGCTTGGCAATTTCT
Band lengths:
326-2082
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]