GgaINT1024734 @ 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:43457690-43460692:-
Coord C1 exon
chrZ:43460366-43460692
Coord A exon
chrZ:43457897-43460365
Coord C2 exon
chrZ:43457690-43457896
Length
2469 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATA
5' ss Score
8.49
3' ss Seq
TGTCCTCTTCTGTCACACAGCCT
3' ss Score
7.9
Exon sequences
Seq C1 exon
ATAAAGTAAGAGAGAATTCGCTACAGCATACGTTCAAGCATGGGAGCACAGCAGAGCTCAAGTGTTCTCAGAAGTCCAATCTGGCACAGGTAGTTTGGAAGTTCAGAGATGACGTACTGAGAGTGGAGAGTCCCAAATACCGGCTACTGGAAAAGGCGCTACTCATCTTCAATTTATCAGAAGGAGACAGTGGTGTTTACCAGTGCCTGTCAGAAGAAAAAGTGAAGAATAAGAAATTCTCTCAGGTGTTGGCTAAGCATGTTTTGGAACTGAAGAAAGTCCAGCATACTACGGCAAGCCCATTGGTGGCAGCTGCATCAACAGAAG
Seq A exon
GTAATAGTGATGTACCAGAAGTGTCAGCTGTATCAACTGAGGGCTCTACTGCTCAAACCTCAACCACTCAGACTGTACCAGTAACAACTGCGAGGATAATAACAAAACCTATTGGCCCTGTCCTAACAAGTGCAACCTCCAACATAGAGCTTTTCAATTCACTTCCTGACACAGTCCCAGAAAAGGCAATGTTTCTGAAGTCAAATGATAACTTCCTGTTGATGTTCCTCTTCCTCTTCTTTTTTATTCTCTTCTTATGCTTGCTTTCCTACAATTGTTACAAAGGGTATTTGCCAGGGCAGTGCTTGAAATTTCGCTCAATCGTGTTGCTTGGCAAGAAAAAAACAAAGTCAGATTTCTCTGATTGTGAACAGAGTGTGAAAGAAACCTTGGTGGAGCAAGGCAGCATCAGCCACCAGAGTGGGGAGCAGCCAAAGCCAGCGCATGACACCGGCTATGAGACAGAGCCGGACTGTGGGAATGGACAGCTTCAGGCCCGGGATGCACAGGTGCCTAGAGAGACCAAGGACAAACCTTTTGATGTGAAGTGTGAGCTCAAGTATGCTGACTCAGATGTGGAAGGAGACTGAAGGACACAACTGTTGGTTTTGTGTTGGATATTAACCATGGTACTATGCTATTTTTGAGCACCAAGAGCGTGGTTGTGACCACTGAGCCATTGGCGAGCTTTATGTGCTTCAGCTACACGGCAAGCCAATTCACCTTCAGATCTCACCAGATACAGAAGCAGTGTTCTCGTCTGCAGACCATAGCATCTTGTTTGTTCTGTCAGGTTTTTTTAAATGGCCAGTTTCAGATCCCCATTTGTTTATCCCCGATTCTTACCCACACATGGAGTACTTAACTCTGGTGAATGGTTGCCCACTCCTTTTTGGCCCTTTTCTTCCTTAGGATAAAAGTAACTAATTCAGTTGGCTTTAATAAGAAGTACTTCAGTCTGCAAATCTTTTAGCTGCCATTAAAAAAAGTTCTAGTTTAATTTGAATTCCAAATTGGAAATTAAGTTTAGTTTATCAGATTGGTAACTTATAGACTATTGTCCAAATTGGGACATTTTTTCTTTGCTTCTAGTGATTATTTTTCATTTGACACTTTGTCTTTTGGCATGCTAGATCTCTTTAGTTGGTTAAAGTTAATTACTTTAACTGCATTTTAAGTATCTTAGCTTTTGAAGTATATGGGGATATATAGTTGGCTTGATTTGTGTAAGATTCTCAGGGATAATCTTGTTTAAAGGCTTTTTTTCTCGCTGCTTTCTAGAAATTTAGATAACAATATCAGTATAAAACTTGTGGACTGGAGTAAGAAGGGGAAAGAATAAATGATAGATTTAGAAACATTTTATCTTCCTTAACTAAGCTGGACATAGTCACCTGTTCTTTGTTTTTTTTTTCTGTACACCATTGGATTTTTCCACTTTCTTTTGATTATTTTTTTAATGAAACAGTACAAGCAAGCAGCTGTCACTTCACAGTGACACTGAGAGAGGTTTTTTGCACTGTGGAAGCAAAAAAGGAATTGAAAATTCCATGCAGTAACTAATCTTGCAACTCGCTGGAATGGACTGTTAGGATTCAGCCTGATAAGAAAACTTTGGGGATGGTTTTTGTTTTTTTATTTTTTCTTTTTTCTGATTCAGAAATAACTTCTTTTCCTGTGACAAATTTTTGCAGCGTCACCCTTTCTGGATGACATCTAATCTCTTATGCAACTGGAGGCTGAAACTGGAGCTCCTCAAACAATCAGTAATTTGAACTGTTCATTTGAATCATGTCTGCAAAAGTGAAAATGTGCATTTGTTCTAAGCCTGGTTCACAGCTGCACTGTTTGTCTCTAAAAGCATTTTGTGTACTACAGTCCCACAGAGAGTTGTCCCTCTCACTGCATCTTTCTGTAAATACTTCTAGGAGTGCATTTGAACAGTAAATAGCAGTGTGCCTAGGCTGCTTCTCTATGTTGAACTTTCATGCAAACCTTAATTTAGACCATCGTAGTGTGAACAGTTTATATTTTATAAGATTCAGTTTGGTTTTATTTTTCTATTTTTAATTATGTATATATAACAGAATAAATATTAAAATAAATTGTATTACACTTTGACTTTTATGAAAGTTGACATAATGGCAATCCTTTCCATACTGCGAGTGCTAATGTTCCTTGTGGCTTCCTTTAAGGGGGAAAAAAGGAAAACTCTCACCAGTTTGGAGCAGGTTCTCAGCTTTATTTACTTGGGTTGTAACCCTCTGGGGGATAGGACGGAGGGGAAAAGATGTGAGTGAAAGAGAAAAGCATTCTTTCGTAGGCCTCTGGGGATGGTTCCTTTTACAACCCTCCTAAAATTCATTTGCCTTTTTGCATTGTTTCTTCAGCGTGTGATGTATTTCTTGCAACTCTTTTCCTTAGTACCACTTTTTTTTTCTTTCTTTTCTGTCCTCTTCTGTCACACAG
Seq C2 exon
CCTCATCTCCTATACCTTTCCCTCCTTCTGGTACTTCCTTTTTGTCTTGTGTGGGATGTGGTCCACCTCCTTCACCCACCAGTATCGAGCCTGATGTTTGGTCTAGCACAGACCCTCTAAAGGTCGTGTTGTTGCAACCTTTCCTAAATGACCAGGCACAGCATGTTAGTGCTCGAGGACCCTTCCACCTCTTCTGCCAAGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010697:ENSGALT00000037939:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.009 A=NA C2=0.071
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(18.2=10.9),PF138951=Ig_2=WD(100=72.7)
A:
NA
C2:
PF138951=Ig_2=PU(26.4=34.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
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]