DreINT0130941 @ danRer10
Intron Retention
Gene
ENSDARG00000062968 | sbf1
Description
SET binding factor 1 [Source:ZFIN;Acc:ZDB-GENE-040718-139]
Coordinates
chr4:9983573-9985480:+
Coord C1 exon
chr4:9983573-9983710
Coord A exon
chr4:9983711-9985307
Coord C2 exon
chr4:9985308-9985480
Length
1597 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
TCTGTGTGTGTTTTTTTTAGGGA
3' ss Score
12.36
Exon sequences
Seq C1 exon
GCCCGTCTCAGGCTGACTCCACCAGCCTGGAGCAGGAGAAGTATCTGCAGGCCATCATCAGCTCCATGCCCTCATACAGCGAGACCAGCGGGAGAAACACACTCAGCGGCTTCACCTCTTCACACATGAGCACCTCAG
Seq A exon
GTCAGACCCTGAGACTAAACTGACCCACTCAGACCATGAAATGCACTTAAAGGCTTAAAACTGCTGGCAAAGTTTTAAGATTTAAGACTTTTTAGCTGAATATAACGTGTTTTGTTCACCAGTCTAAAGCTAAGTATGCATCCAAAATACAAGGGTTATGGCTTTCTATTATTGCACTTAATCAGTTTGTGACTGTAGATTTCAGGTATAGTGGATATTTTTAAAGATTGAGTTATAAATCTCCACTTTAGCAGCACTTGGATAAAAATGTTTACAGTTTCATTAAAATATGACTGTATTAAGGTTTATAAAAATGTATTGTTCATACATAATTTAATCTTTTTGTTCTGCAATTCTTTTTCTGTCTTTCACAGTATTTTTTTTAAAATGGAGATTCCCCAAATCTAAAAACCTTTGACTCGAATATATCGGAAATAAAAGCTAGAATTTTTGAAACCTGATTTTAGTTGATGTTTAGATTTTTGTGCCAGAGACCGATGTGTATTAGCACATATTTAAAGTAACAACGCCTCGTTTCCATATTCAAACACTATTTTTGCTAGCTATTAGTCACCTGCTGTATCTTATCCTAATTCACAAATAATATTCACACTCTTATACATGTTATCTTTGGGCCTCAGACTCATCAGATAAGCTGAGGCAACCTAAAATAGGAGCTCTGATGAAGCAAGTGATGGGAGCTAAAGAGGACGTACCAGGAACCTTCAGTCGAGGAGGTGAGCGCATGTTCAATGTTCATTTCAAGATCTTCCAGACTAAACCTGCCATTCATTCCTCTGTTCCCAGTCCTTTATTCAATCCCATATAACAGAGGAAGTCATTGTGTGCATTATTTGCCAAATAACCCGTTTAATCCCAGTAACAATTGTGACCTTATGTTTTTGGCTTATTTTTGGAAGCTCTAAAAGTCTTGTCGTTGATGGCTTCGGATAAGAAATTAAACTTTTGAATAAAATAATTGATGCTTTCAATTAAATTGAGAGACTGTCACATGAATACATCAGTTTACATACCTCCTGCTTGCACATATAGAAGATATAAATAAATAAAGTGGTCACAATAGTATAACACATCGTATTAGCTTGTTATCTAATGAGGCGGGATTGAATGGGTTAATTGGGCCCAGTTTTGTTTTGTGCTGATAGTAATGGGCATTTTTGTCATGTGACCTTAGCGCTGGGTCAGAGGGCGAGGGTGGTCTCCCTCTCTCAGCCTAGAGTTTCAGTCAAGGCCCGCAACTCGCCCAGAGGTACAGTAGGCCCCGCCCCCTGCTCTCAAATCTAACCAATCAAATCTCTCGACAGAGACGCGCAGCCACTTTGAGCACTAAGTGTCCATGTATAGCAGTGTTGTCATCATCCTCCTCTTTCCCTGTTGCTAACTAATCGTTGACCACCATGTCTGTTTGATTTATCTGTGCTGTTTGTGCGGGCGTGATGAGCATCTCTTTGCATGTGATCCACCAGATTTTTGTCTGTCTTTACGCGTCTGTAGAAATCACTCTGAAATGATTCCACTGAGTCTGGTGTTTGTCCCTGAATGGTCTCCGCTGGTCGTCTGTGTGTGTTTTTTTTAG
Seq C2 exon
GGAAATGGGGCAGTATTCGTGGAAGTGGTCGGCTCAGTACGTATAACCCTGATGTGGGGAACAGGCTAGCTGGGAAAGAGTCACCGCAGGCTAATGGAGGCCCAAGCGAGACCTACTTCCTTCGGCAACAGAGAGCGTACTTGTTCATCATTGGAGACAAGTCCCAGCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062968:ENSDART00000109452:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.388 A=NA C2=0.371
Domain overlap (PFAM):
C1:
PF066029=Myotub-related=FE(10.7=100)
A:
NA
C2:
PF066029=Myotub-related=FE(13.3=100)
Main Inclusion Isoform:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCGTCTCAGGCTGACTCC
R:
CTTAAGCTGGGACTTGTCTCCA
Band lengths:
310-1907
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]