BtaINT0137050 @ bosTau6
Intron Retention
Gene
ENSBTAG00000043991 | SLIT1
Description
slit homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:11085]
Coordinates
chr26:18136427-18137720:-
Coord C1 exon
chr26:18137509-18137720
Coord A exon
chr26:18136708-18137508
Coord C2 exon
chr26:18136427-18136707
Length
801 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
3' ss Seq
TTGGTGTCTGTCCCATCCAGAGT
3' ss Score
7.13
Exon sequences
Seq C1 exon
GTGTGTCCACGGGAAGTGCGTGCCTCTGGATGCTCTTTCCTACAGCTGCCAGTGCCAGGATGGGTACTCGGGGGCCCTGTGCAACCAGGCCGGGGCACCTGCAGACCCCTGTGAGGGCCTGCGGTGCCTGCATGGCCACTGCCAGGCCTCAGCCACCAAGGGGACATACTGTGTGTGTGACCCCGGCTTTTCGGGCGAGCTGTGTGAGCAAG
Seq A exon
GTCAGGGGCCCCCCTCCTGACATGCCCTCTCCAGGGTCCCTCCCCACAGCTGGCTTTAGCGACTTGACTTTTCTTTTTCCCAACCTCAGTGGCCCCTCTGTGCCCCTCTCCCCTCCTTGTGGGCAGTAGTGCCCCCAACCTTCTGGGCTCTGAGCCCCACTCCCAGACCAGTGCTCTATCTCTCCCTGGCCCAACTTGCGTTGCAGCCCCTTTATCTGGGCTCAGTGCCCCTTCTGGCTGGGGTCTCTCCTTACCGAAGAGACCACCAGGGTAATAGCATCTTAGCCCATCACCTTGGGACCTAGAGAGCAGCAGGAGGTCTGAGAGTTGGGGACTCCTTCCCAGGCCTTTCTGGCCCACATGACCAAGATGGTCAAGGGGCTTCCACTGAAGTGGGTAGGGAGGAGCCTGAGAAATCCAGAACTCAGGCACGTTTAGGTCCCCTATGCCAGACCCTCTGGCTCCAATTCCGTCTCTGACATCATTGCCTCCCAGGCTTCTAGCCCCTTCTTGAGCCCACCTTACTGGCGCAGCCCAATCTGTCCTGGAGGCTCTTGGCAGCTGGAATAGTCTTCCTTTCCGCTGACCTCACTGTGGGCCCAGGAGGAGGCATGTGCATGTGCATGCCGGGCAGGGAGGATGTGGGGATGGAGGTGGGGTCTGAGAGCTGGAGGGCTGTGTCCAAGGATGCTGTCCCCAACTCCTGCTCGTTTTTCCTCCTCATCTTCCTTCTGCCTCCCCAGGGCAGAGCCGGCCCTCGGGTGTGCCCTGAGGCTTTCTCTTGGTGTCTGTCCCATCCAG
Seq C2 exon
AGTCCGAATGCCGGGGGGACCCTGTCCGGGACTTTCACCAGGTCCAGAGGGGCTATGCCATCTGCCGGACCACGCGCCCGCTGTCGTGGGTAGAGTGCCGGGGCTCATGTCCGGGCCAGGGCTGCTGCCAGGGCCTGCGGCTGAAGCGGAGGAAGTTCACCTTTGAGTGCAGCGACGGGACCTCTTTTGCCGAGGAGGTGGAGAAGCCCACCAAGTGTGGCTGTGCCCTCTGCGCGTAGCGCCTGGAGTGCACGGGGAGGGGAGAGGGCGGGAGAGGGGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000043991:ENSBTAT00000061296:32
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:
PF0000822=EGF=PD(66.7=36.1),PF126612=hEGF=WD(100=18.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTTTCCTACAGCTGCCAG
R:
GGTGAACTTCCTCCGCTTCAG
Band lengths:
342-1143
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]