GgaINT0061031 @ galGal4
Intron Retention
Gene
ENSGALG00000002294 | SEMA6A
Description
Semaphorin-6A isoform4 [Source:UniProtKB/TrEMBL;Acc:E1C1C2]
Coordinates
chrZ:72462419-72463438:+
Coord C1 exon
chrZ:72462419-72462595
Coord A exon
chrZ:72462596-72463297
Coord C2 exon
chrZ:72463298-72463438
Length
702 bp
Sequences
Splice sites
5' ss Seq
AAAGTGTGT
5' ss Score
2.99
3' ss Seq
TTCTCATGTTGTCAAATCAGGTG
3' ss Score
7
Exon sequences
Seq C1 exon
ATACCGCCTGACCAAAATCACTGTTGACTCTGCTGCTGGGCCGTATAAGAACTACACTGTGGTTTTCTTGGGATCAGAGAAGGGAATCATCCTGAAGTTCTTGGCACGGACAGGAAACAGTGGTTTCCTAAATGACAGCCTTTTCCTGGAGGAGATGAACATCTACAATCCTGAAAA
Seq A exon
GTGTGTATCTGATTCTTTTTACTCATGTACGGGTGACTTTTGACACTTCTGATTTCCCGGAGAGCAAGTTGTCCCATGAAAAGGGAAGTAGTTAGAGAAGCCAAGTTTCTTTTTTGAGTAGTTTTAAATTGTTTGGAGGGATGTCTGGTTATCAGCCTCTACAATGAAATAAAATATTTTTCACCCAGTATCTATAGACAATAGCCCATCCTATGCAGCAGTTGACAGATAATTTAAAAGAAATTCTGCAGAGGAAGATTAATTTTCTAATCCTATAAAAAGCGTGATTACTCTCCAAATAACTCATCAACCAGCAAGATAATCTCCAAGGGAAATTTCTGGTGCTGTAGCCTTACTTGAATATGCCTGAAGGGACACTGAAGTGTGCCATAAGCATGCAGAAATTTCAACTGCTTTGAGTGCTGGAGAAGAATAAACATAAAAACTGAAGGGCTTTCAGAAAGCATGTCTGGTTTGCAGTCTCTCTCCACCTCTCCTTCCCTTGAACCATGCACTTTTATTACTTAGTTGTATGTCTTTTTAATGGTGTTTTTAGTGGCTACTGCGCATTCTTTCACCTCGTCTGGTTCAGGTTTTGTTTCTGGTGGTCTTTGTTTCCTTTTCAGGTTGAAGAGCCACTGGTTTTACATCTGGTTTCACAGCAGAACTCTTTTGTAACTATTTCTCATGTTGTCAAATCAG
Seq C2 exon
GTGCAGTTACGATGGCATGGAAGACAAGCGTATTGTGGCTATGCAGCTTGACAAACCCAGCAGTGCCCTTTATGTTGCCTTCTCCACCTGTGTCATCAAGGTTCCCTTGGGGCGGTGTGAGCGTCATGGTAAATGCAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002294:ENSGALT00000003608:13
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(13.7=100)
A:
NA
C2:
PF0140314=Sema=PD(2.3=20.8),PF0143720=PSI=PU(13.2=18.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATACCGCCTGACCAAAATCACT
R:
TTTTTGCATTTACCATGACGCTCA
Band lengths:
318-1020
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]