GgaINT0061020 @ galGal4
Intron Retention
Gene
ENSGALG00000002294 | SEMA6A
Description
Semaphorin-6A isoform4 [Source:UniProtKB/TrEMBL;Acc:E1C1C2]
Coordinates
chrZ:72436110-72439010:+
Coord C1 exon
chrZ:72436110-72436247
Coord A exon
chrZ:72436248-72438892
Coord C2 exon
chrZ:72438893-72439010
Length
2645 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TTCTTTTTCACTTCCCACAGATA
3' ss Score
11.41
Exon sequences
Seq C1 exon
TGTGAAGTGAAGAAGTAAAGTCTCCCAGCTGAACTACTATGAGGTCAGAAGCCTTGCTGCTATATTTCACACTGCTACACTTTGCTGGGGCTGGTTTCCCAGAAGATTCTGAGCCGATCAGTATTTCGCATGGCAACT
Seq A exon
GTAAGTATAAGAGGCCTTCATCTGCTTTGAAGTAATCATTAGACTTCAAATTGACAGTATTTTGTTATGCTGTGAATAAATAAAGTTGTTTTTCCTCCTCCCTCCCAGATCAACCAATTTACATTCTCAGATAATAAGAACAAGAACTGCTTATCTTGACTTATGACAGCTGGATGGTGGGATGTTTGATTCTCCAAAGCCATAGCCTTTTTCCTCCTCAAATAGATCCTTTGATAGCATAATTAGACCACGTATTTGTTTTATCCAGAAGCAACTAAAGGAAACTTCCCCCCCCCCCTCCTCCATTATCAAGTAATTATTCACCTGACCTGTGAAATTGTAGGTCTGGATAATCAGTGGCTCATCTCAGAGTATCACTATAGCACAGTAAATAACAGCTTTAAAAATATAATTGGTTGAGCTAGTACAAATAACCAATCTTACTTCTTTGAACCCTGCTGGATTGCACTTTAGCATTTGGCCTTTTTGGCTAGAAATGTAGATTCTTTTTTTATTATTTTTTTAATAAGACAAAGAATCTTTTGTAACAGAAATCCTCTTCTTTCTTACCAACACTAGTTGGCAAACTCTGCAAAATCATGGGTAACACAGACAGCTGCAAGTCAGTACTGAGATTTGCTGACAAAACAGGTGGAGAGCTTTCTATGGATTTTACCATGCAAGTCAGACTTAACATGAGTGATTCTTCACATTTACCACAGCTCAATTTCAATTACTCCAGAGAAGAGTATTCTGAAGTCCTGAAGTTTGAGATATTTAGTAGGAAGTACTTAGCATGTGAGTCTGTAAAAGTGTGCTAAGGAACAGCAAGTTAGCAATTATAACTCATATTTAAATCTACTTTGGACCAGGAATTTGATTTTGATGTGAGTCTCCTGAGTGTCCTTGCTCATTATGCTTTGCATTGGCCTTGACGCCCAGAAGCCTGTTTGTCTTGGGGAACACTAAACCGGGAGACAGATCCTGCCAGGCAGTTGATGTGCTCCAACTGCTAGTAGACATCTGTGGTACTGGAACAGGGCAGAATTACGCTATAGAAAACCCTACTGAAACTTATTTAGGGTGGCCATCGGGCTTTCAGCAGCAACATTTTCACCTTCCAAATGGTTATGTTGATTGTTTGCATGAAATGTGGGATAAATTCTCTCTCCAGCATGGTGTGCTGAAATGCATGTGAATGTGCAATCCCCAGCTTCTATTAGATCAGTGACTTCCTACAGAGGAAACAGAACTGAGTAGAGAAGAGCCTGAAAGTTTGAAGTTGGCATTTTGCACATAGGTCTCGGTCAGAAGCTTCAGGCTTCTGAACATAAATCCTGGCTGGACTCTATTAATTTGTTTCCCCAAGAGTTCTCAGCATCTGATTTACAGACTTTCTCACACATGATGTTCTCAAGTGCTTTGCCAAAGCTGTACTGTCAAAGTCAGTGCTTCAACCAAACTTGGCAGAGAGAATACTCTTAGAGGACAGCGGATGAAAACTACAAGTGCAGTAACTGAGTTTCTGAAGAATTAGGCTCCCTCAATTAGCTGCAGTTTTCTGGTAAAACAAATTGCTGGGGATAAGGCTCGTTATGGCTTGATGCTAGTCAGATCTGTGTAATGACTAAGCACTACACAAGCTACCCAGACAGTCTGTGGATTCTCCCTTCTTGCACATGTTCAAAAGCTGCCTGGATGTGGTCCTGGGCGACCAGCTCTGGTGACTGTTTGAGCAGGGAATTAGAAATCAAATGGCCTTCAGAGGTCCATCAGCCAGTCTGTGGTTCTGTGAATATACACAGGCAACACTTCAGTATTATGATGATGTTCATCAGAGGTTTATTCTCCTCTTGTCTTTGCATTTGCCTGTATAGCTCCTTATTTGGTGCACCTAGACATCATGATCATGCATTCATTTTCAGTCTAACAGCAAAGTGGCTCTCGGTCAAAAATATTTACTATTGCTGTAGAGAGGGACTAAATGCTTGTGCTGATTGATAGAGAGGGGGAAGAAGCTGGCTTGATGATAGCATAAGATCAATAGAAGGCTTCCAGTCAGTACTGTTGCTCAGTTTCCAGAAGAACTGCAGTATCAGACTGGTTGCCAAAATAATGTGCAGACACTTTCATTTTAAAAAGTTTGAGTAGTGGTTACCCACAGTTTCTTAGAAATCCCCGCAGCTGCTCTACAATATCAGTCCAATCCTGTAGGAAACCCACTGATCTGACAATTTGAACCACTCAGAGCCAAGTCTTTTGCTTTAACCACTACTAATCCAGTCATTGTGATGATTGATGGGCTACTGTAAAACAGCTTTGTCCTACTCGATACACTTTGGCAGCCAGAAGCCAGCATTTAAAGTCTGCAAGCCGTGAAAGAAAAACTGTGAGAAAGTGCCATGTACCTCTGTGCCAAGAGCTCTAAAGCAGCTTTACATTCTAAAAAATTCACAGTTCTTGTCTGCTAAAAAATTACTTTCTCCTTTGCACCCTTAGCCCTCTGTGCTAGTACCTTCCCGCCCTAGGCCCTGATGCTGGGGGAGAAGAAAAACCACAGATTTCAGCCGTTGCCATGTTTGCATGTGATTCTATTTTGTCTTTTGCTTTTTCTCTGGAACCTTGTTCTTTTTCACTTCCCACAG
Seq C2 exon
ATACAAGACAGTATCCGGTGTTTGTGGGTCACAAGCCGGGACGGAACACCACGCAGAGGCACCGGCTGGACATCCAGCTGGTCACGGTCATGAACAGAACCCTCTACATTGCTGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002294:ENSGALT00000003608:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.025
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0140314=Sema=PU(3.9=42.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
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]