DreINT0132834 @ danRer10
Intron Retention
Gene
ENSDARG00000036626 | sema6ba
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6Ba [Source:ZFIN;Acc:ZDB-GENE-131024-1]
Coordinates
chr2:49540493-49543622:+
Coord C1 exon
chr2:49540493-49540583
Coord A exon
chr2:49540584-49543502
Coord C2 exon
chr2:49543503-49543622
Length
2919 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
CCTCTGACCTGTGACCCCAGAGG
3' ss Score
5.14
Exon sequences
Seq C1 exon
AGAGACACTTTGGAATTGGTTGGCGAGCCCATCAGTGGAATGGCCCGATGTCCTTATGATCCCAAACACGCAAACGTCGCTCTGTTCGCAG
Seq A exon
GTAAAAGCACATCTTTCAGGCCATGTAATGACTCTATTATTCACATAATGCATTTATATGTTTATCCCATTCAGTCTGAGATGATAAGAGCCGTACACCCAGTGGATGCTGTAACGTTGTCAAAAGTATTGATATTTCCATGCTGAGCATTTCAAATATTACATTTACTTGCACTTCAGTGGATAGGCTAAATATCTGTCATATAACAGGACTGTAAAACACAGTCTGTTCAGTCTAAAATGAAAGTAAACTCGTTGAGGTGGACATCTCTTAAAGTAACAACAGCCTAAATTTGTTGCTGTCATTAAAGAAGTTGTGGTTCTAAACTTTTATAAAAAGTTTATCCTTCTTCTGTTGAAATTAAAGGAAGATATTCTGTAGAATGTTGGAAAAAGCTTCCATTGGCATCCATATTAGCAACAAAACAATAATATGGAAGTCAATGTTTGTTTTTTAAAACATTTTTAAAAACATCTTTTTTTGTGTGCAACAGAAGAAAGAAACTAACACATGCTCATTGTAAAAACGTACCCCCGTATACATTTCTGGAGAGCGTGAATTATGTAGCCAGAGGTACAAATGGCTGCATTTCATCTTTAAAACAAATGCTGCAGAGGTGCTGACAGCTTCTGTTTCTTTTTGCGCTTACCAGTTGACCACTTATGTACCTCCATGTAGACGGCTTTTCCAATGTTACCCAGTTTGCTCTGTAGCTTGCCATGTATGTTCGCAGACTTGAAATGCAGAGAGAGGAGTTGACGCAATGAAGGGGCTTAAGTCAGGTGAAGAACGTTTCCAGAAAGAACATGCGAGAACAAAAAACTGCAAAATTACGCACCTCCCGGGATGTATTTTGCAATCTCTAGAAACATGGGACTATGTTTTCAAAATGAGACTGGGTTGTTTTGAAAACACTATTGGTTGGGTTTGGGTAGGTGGTGATCAGGTCAATCGGTGCTTTTTCGGTCGGTCGGTCGGTCGGTCAGTCAGTCAGTCAGTCAGTTTGTAGTCAGTCTACAGTGGCCTCTGGTGTATTTATGCGGGAAGAGCAAGTGCGAATGGTACTCGCAACAGAAATTTGAGATCTCAAAAAACCTACAAAGCATCTTCTGGTGGATTCGTTAAAAAAAACATAGCTCCTGGGATGTATTTTGCATTTTGATCTCCATAAATGTATATAGGGGTACTCATCAATAATGAGCCTGGGTTGAAAGAAACTTAAAAAGGTTTGGAACAAGTTTTGGATGAGTAAATGACGACAGATATTTCAGTTTCGGGTGATTTATCTCTTTATCATTAATCAGCAAAAATCATTGTTTTGTTTATTTGGGTTGCTGCTTGTAATTTGTTTATTCGTTTTCTTTTTTTACTAATTGTTCACTTTTTTCAATTAAGCTAAATAATTACACTTACTAAATAATCGTCATAAAGAAACGAACACCTGTAAAGTACCCATTGATTTTTGTTCAGTAAAATCCATCAAATTATATTTGACTACTAATATGTTTTTCTATTTTATTTTTCATTTTTATAAGGTTTTGTGGTAATAATTCATATTTATGCAGCGATTACCATCCTTTTTTTGTGGAATTTTTTTGTTTTCGTTATTTTTTTATATATTGTAGTATTTCCAGGTAGAATAGAGTATGTGCCATTCAAAAACAAAACCAAAAGGCAGGTTAGTCTCATCTGGTTAAAAAAAACAAAAACATTTTTTCACTCAAAGAACACAAGTGTGACTATTTTTTTACAACCATTTAACATGCTTGAGTCATGGCATCAATTTCTTTTTTTTTATTTTGACATATCAAATGCCAACAAAGTCGATGAGTTTTAAACCCACAGCTCTAGGAATTCTAGGTATTCAAAACATTTTTCTGATAGTATGTGGATGCAGCCTTGATGATGCAAGCTGAGACTGCATATCTCAGTGTTGCAATGTCAGACACTATGCACTCAGTGAGGGGTAGGGTTAGGGGTGGGGTTAGGTGAGCTTATTAAAAAGCATTGCATGCAGCACAGATTGCACTGCAACTAGGTCGGCATCCAGACCCTCTTCAGTTTTTCTGGTCTAAAATGACCAAAGACTACCAGAGGGATACTGAAATGTTTAATATATATATATATATATATATATATATATATATATATATATATATATATATATTTTTTTTTTTTTTTTATTACAGCGTTACATGCATCAAACCAATGAAAACATGTGTTTTCCAACATTTCTTTGACATTTTTTTTTTAGTCTGACCAAAAATTGAAAGGACAAGTGAAAAACTGAATAACTTGCCTAACTACACTAGTAATAAATATCTTTAACACAACCTTCAGGTTTTACCACTGGCAAATTAAGGAATTAAAGGGTCAGTTCACCCCAAATTGAACATTACATTTACATTAAGGTTGTATTATAATGTATTTGCTTACATGAACAAACAATAAAGAATACATTAATTAGAGTATTTATTCAACTTTGTTAATGTTAATCATGATAATAAAATTGTCTACGTGACTCAGTGCATGGATTTGAATTTTAATAATGCATCAGTAAATTCTGAACTATGATTAATTCATTCTGTACAAGTGTTGTTTATCATTAGTTCATGTTGGCAAATACATTAACTAATGAAACTTTATTGTAAAGTGTCACCAAAACCATCTACTATTAACAACTCTCCATTCATAAACCTCCATTCATCATCAAAACACAAATGTAAATATTTTAGATGAAATCCTGGAGCTCTCTCATCCTCAATCAACAGCTGTGATCCAGAGACGTTCAAAGATCAGATTTTAATTTGCCTTAAATTTGCTTAAGATCAAGCACTTTTTACTTAAATCCTTTGCACATATATCATCATGGCACAATGTCAATATTATTGACCTCTGACCTCTGACCTGTGACCCCAG
Seq C2 exon
AGGGCAGCTTGTTCACGGGTACAGTGACGGACTTCTTGGCTATTGATGCTGTGATCTACCGCAGTCTGGGAGAGAGTCCTGCCCTGCGCACCATCAAACATGACTCCAAGTGGTTCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000036626:ENSDART00000154285:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(7.0=100)
A:
NA
C2:
PF0140314=Sema=FE(9.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]