GgaINT0067170 @ galGal4
Intron Retention
Gene
ENSGALG00000010697 | SEMA4D
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D [Source:HGNC Symbol;Acc:HGNC:10732]
Coordinates
chrZ:43462070-43465610:-
Coord C1 exon
chrZ:43465495-43465610
Coord A exon
chrZ:43462243-43465494
Coord C2 exon
chrZ:43462070-43462242
Length
3252 bp
Sequences
Splice sites
5' ss Seq
AAAGTAGGT
5' ss Score
6.84
3' ss Seq
GTTTTTTTGTTTGTTTTTAGAGC
3' ss Score
10.6
Exon sequences
Seq C1 exon
ATCAAGGGGCCCTGCACAAAGCTATCAGCTACGAAAATGGAATGCATATTATAGAAGAAACACAACTTTTCCCAAAGTTTGAGCCAGTTCAGACACTCTTACTTTCATCCAAAAAA
Seq A exon
GTAGGTGCTACAAGCATCACAACATTAATCTTTTTTTTTTTCCTCTGTTCTATAAAACTTATCTACGATCTTGTAAAAATAATTTTAATGAAGCAGTGCAGACCGTGGAAATCTGCAGCTGTAGTTTCTGCAGTAGTGTCAGTATTTTCCCTGATAATTTCTGTTGCTTTTGATAGGTGTCAAGCTTTTGAGGTTGTCTAGATCTGGGGAAAGCCTGTGTGGTGGTGGAATGGGGACACAGATGTGCAGTCTTGCTGTGGTTGTTCAGGAGCTAAAAGCTGTAATGTATTCAGAGGCATAGATTTTTAGATTAGGAGTGGTGTAAAAATCCTGACCCCTTGAGGCCAGGAAAAATCCCCAGGAAATAAATATAGGAGTGATAATATTTTTCTTAGGAAACAGACGTTAGTGGAGAGAGTCTTTTCTAACAGACTGAAGATTCTGTACTTGATTGATTTCTGCTTTCCCAGACTTATCATGCTAGTTTTGTCTGGTAGACTTATTAGAAGACTAAGCATGTTGGTGCTGCTGCTGGTGAATGCTCTGTAAAAGGATTACTGGTGAGGTCCTGCCAGCCAGATAGGGCTTCAGCCACAGCTGGAAGACACAGGCTTCACTACAGACTCCAAACACAGTGATGTTTTGCATTATTATCAGTTAATGGGTTTCATTGTTGAGTGATTTTTCAACAGTGGGAGAATAATCATTTTGTGTATTTTGTACACTAGTCTTTTGGCCCTGTTTACTCAGACATGCAGATCCATGAACGTCTACAAAATTATTACCATAAGCGGTAGCTTGTAGCATCAAACCCTTCAACTGGTGAAATTTGTGAGCTTCTTAAGGAAAGAATGACTGTTTAGAAGTGTCTGATAATCTTATTGATATTCAGTAAGTACCCAGTGATCAGTAAACGCTCTGATGTTAGGGATTTAGGAATACTGCCAAGATACCTTAAGAGCAGCTATTCCAACATGATCAATTCCATGGAAAAGAGCTTTATGACAATTCTTTCCAGCTCATCTAGCATGTGTAGTAGTCATTGTAACAGAAAGAAGTATCATGAAAATAGAGTATACTCTTGACAGGCAAGTCAAAATCAGTGTGATTAAAAGCTTCCTTTTTCATGGATTTCAATGGAATCTATTGTTTTTCTGTGTGATTCATCACACTGGCCAGGGTACAGAATTACAGAATAGTTAAGGTTGAAAGGCACTTGTAGGTCCATCTGGTCCAACTCCTGCTCTAGCAGGGACACCTAGAGCAAGTCATTAATGTAGCTGTAATTTGATACGTATAGTGGCATCCTGTAGTAACTGATTAACAGTAGGAGAGCAGTAGTTCTTACTCTTGACAGTGAGCCTTAGACCCTCCTATACCCTCACCTGGCTCAGAGGGTTGTAGTCAGTAACATGTGCCTACAGCTGATCCTCTAACTCCTGTTTGGCTGAACGATGTCTGGATTTTTGCAATGGTCCACTCAGTTCTTCACTTGTTTTCTGAACTCCCTGAATGTGCCATCTTGGAACCATTCATAGGCACTGATACTCTTGTGCAGTGTTGCCCTGTTGGCTTGGATGTTAGCCAACAAAATGCTGGAAGGACAGACTGACTGCAGTGAACCAGGGGAAGCTTTTCCTAGAAAGCCCTACATGTTTTAATGCTGTGAATTTATTACGTGGACACTCCAGCACAGACTAATGTTAAGTTAAATTTTAGTATGAAAGACTGCATTTGAATGTGTCTCTCTGAAGTTTAGTTCTCTTTGAAAGTCCCATCTTCCAGTAGTGTACATTTCTTTTTTGATCCAGATTTGTCTTTTGTTAGGTTTTTCCTTGAAATTCACACATATGAGGGATCTAAAGTAGTTTCTGCTTGATCTTCCTCTAGAGACTTCTGTTAGCCATAATGAAGCATTCATTAGTTTACTCAAAAACACATGTTCTTCTGTTCATCGCAGTAGAGACTACCTTCTTCTGAGTTCTCATGATAATACCTCTTCATATAGTTAAATAAAAACATGACAGTAAGCCTCCAAATCTAAATTCAGCCCTAAGTGTTTTTGTTTGTTTGTGTATCTTGTTTTTCTTGATGTCAAGAACAAGTCTATGCCATCAGTATGATGTTTAGGAAGAATCTTTCTTTACTAGGATGTTTTTCTGGATACTTGTCCATTGCTCTGTGACAGTGTTCATCCTGCCAGAGTCAAATCATCCCCCAAGTGTCATTTCTGCATACTGAAAATCTGTGCAGAATTTCAGATCTACATACTGGAAATCAGTATAGACAAAGCCACTTGGGTGCTTGGATCTGACTTCTTTGCCAGGACAACTGCTGTAGAGTGCCAATACGTTTGTTTGGTATTCTACTCAGGAGGAAGTAAATCCATTGCCAAGGTGGAGCTTGGTATTTGGCTTTGTATGTACAGTGTCTGAGAAATACTAGATGGTAGATTGCTTATGGTGTTTCTTTGCAGGCCAAACCGATTTCCTGAGGCTTTGTATAGTGGTGAGTAAATTCACAGTATACCTTCAGTCATCAGTTTTCTTGAACTTGGATACTTGCCATTTCACTCATCTGTTTGTCTTTTATGACAAGGATGATCAGAATGAGTGTGATGGTTTTCCTGATGTACATAGAGTGAGAGTTGTAACAGATCCCCAGGATCAGTAGGTGAAGCAGTTATTCTCTTCATATCCCCCTTTTGCTAAACATTATGCCAACATTCATTCCTTTGAATGCTATTCACAGTTCTTTCCTGCAGAGCGTTCAAGGAAGTAACTGCAAGTAAGCAACTACAAGATTCAAATGCAAGGCTGACACTGGAGCTGCAGGGACCTGACCAGAAGGCAAAGAGTTGCTTTGAATTAACAGATGTAGGAGCAGTATTGAAAACCTTCCTTTTTCAGGCTTGGATGTATCCGCTGCAGTTTAGTGATTAGCACATGCTTGTCTTTCTTTGCATGAAGTCTATCAGTGAATTCATATTTATGGAAAAAAAAAATGATATATAAGAGCCACAGTTAGGCAGTTACTTTCCTTTCTTATGAAGTATGTTGATTGTAATTTTCTGTTCTTCATTTCCACTTCAAGTGTCACTGAATATTTTAAAAATGTTTTTTTTACAAACGTACAAGTATGTATGCACCTCTTTTAATAATTTTTCAGTTGTTTCATGAATGCAATTGAGTGTGTAAGCTTGTTTATGTGATTTTTTTTGTTGTTGTTGGTTGTTTTTTTGTTTGTTTTTAG
Seq C2 exon
AGCAGAAGATACCTCTACGCTGGTTCAAATTCTGGTGTGGTTCAGTCTCCTGTGGCATTCTGTGACATGTACACCACTTGTTTTGACTGTGTTTTAGCAAGGGATCCTTACTGTGCTTGGAAACCTCTTGAGGGTTCTTGCGTTGATATTTATCAAGAAAGTGAAACTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010697:ENSGALT00000037939:11
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(8.8=100)
A:
NA
C2:
PF0143720=PSI=PU(57.6=65.5)
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:
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]