GgaINT0061021 @ galGal4
Intron Retention
Gene
ENSGALG00000002294 | SEMA6A
Description
Semaphorin-6A isoform4 [Source:UniProtKB/TrEMBL;Acc:E1C1C2]
Coordinates
chrZ:72438893-72444570:+
Coord C1 exon
chrZ:72438893-72439010
Coord A exon
chrZ:72439011-72444509
Coord C2 exon
chrZ:72444510-72444570
Length
5499 bp
Sequences
Splice sites
5' ss Seq
TAGGTCAGT
5' ss Score
6.39
3' ss Seq
GTTTGCTTTTGTTTTTACAGGGA
3' ss Score
10.64
Exon sequences
Seq C1 exon
ATACAAGACAGTATCCGGTGTTTGTGGGTCACAAGCCGGGACGGAACACCACGCAGAGGCACCGGCTGGACATCCAGCTGGTCACGGTCATGAACAGAACCCTCTACATTGCTGCTAG
Seq A exon
GTCAGTAATCCTCTGCTTCGCCACTCCCTTGCTGCTCACAGAGCAGGAGGGAGAGGAGGAAGGATATTTTGAGTTTTTCTCTTATAGGCATGTTATTTTTAGGATTTTCTCACATGGAGACAGAGGTTTGCAGGCTCTTAGTGAGATGTATTGGACACCTTGTTTGTCAGTCAGCTGAGGCTCAGTTCTGCTAAAAGCTGAGCCATCCCTTTCAGGACTTCTTCCCCATTGCTCCACCTCCCTTTGAGCTTGGGAAGAGAGAGTTTGCAAAATAAATTGTTTGATGCCACGGAGGAGAGAATCCGTCTTCATTCCGTAATTTCACTCGTGCACACAATTAATTATATGTTTTAGAGAGTGATTTTGCTAGTGCACAAATGCATGTTTGAATAAGAGTTGTTAAACTTTAATGTTGCTTGTTTTGGCATATTTTTGGTACCACGAAGCAACAACAAAAAGGTGGGGGTGGGGGAGAAGCGCATTTTTGCTGCAGTTCTGTTGATGTACTCAGAAAGGTTAACTGAATTTGGTGTTTTGGATTTTTTTGGACTGCTACTCTGTGCAGATACAAATACCTCTTCATACAAGTCGCATGTCAAGCCACTCATTTAGCTAGTGTAGCACAGCATAGCACTACCAGCTTCGGTGGCACATACACCGATTTATACAGCTGCCCGCCTGGCACAGACCCAACAGTAATGTTTCCTCTCCGCTCCTGATGTTAGCAAAGGAGGCTGACAATCTCCGAGTGGGAACTACCTGATGGGAACGGGGCGAATTCAGGAAAGGCCAAGATTAGCAAGGGTCAGAAGCCTATCTCAGGCGCTCTTGGACCCAGATCCTGTTTGGGAAAGCTGCCCCTCGAGGAGAAGCTTATTTCCTCTCATTTTTCTAGTCCTGCACCTCAGAAATATTCAACCTTCTGTGAGCTACAGAAGGCCAGGCTGTTTCTGCAGATGGGAGTTGTGGTGGGTGGGATGGCCAGGGGGTGAGGGAACAGCAGCTGAACAGGCAGCCCCTCACCACTAGCCTGTCCTCAGAGCCCTGGGTAGGGCTCCAGGAGCTGTCTGTCTTTCATATCAAGCAGTTCCTTCCCATTTTCTGGGCGATCAGATGTGGCCTGTGGTAGAGAGTAATTCCTGCTTTACAGCAGCCAAGTCACTGGTGCTGTTTTTACATGGTTGTTTCTTTGGCTGCTTGAAAACTGCACTTGTAACTCCTCACCTGTAGGCTAAGCACAGCTTCGTCAGGCTTCTCACATACTTCACTTCAAACTTCATCCACATCCACATGGCAGAGTTTGGGGCTCTGGCTTAATGCCATGCCCTGCTGGTTTCCTTGCAATTTCCCCTAACATAGCATTTGTTCCGCAAAGCAGCAGCAAGAGACAAGGACTTGAAACCGAAGTGTTGCAGAGTTTGAGGCTTTTAAGCAGATAACACCTTTTTTTTTCCTTCTTTTTTTCCTTTTTTTTTCTTTCTCTTTTTTTTTTTTTTTTTTTTTTTCTGATTTCTGCCAGTTTGTTTTCTGCTGTTTTCAGCACTGCTTTTTTCCTGGTGTCCCCGCCAGGCCATCACACTGCTCCCTTCTCCCAGGCAGTGCAGGCCGCATGTCCAGGCCAGCCATCCATCTTAGGCCTGGTGCTCTGTGTAGCAGAGCCGTCTCCCAGGAGCGACCTGGACCAGCCCCTTGCATTCAATCCTGGTGAAGTGTGTAGGTCAAACACCACAGCCAGCTGTAGGACACAGGACTGTGGTTCCTCTCCTGCATGAGGGATTCAGGTTCACCTTGCAGTGGGGTGCTGGCCCCACTGTGAGGCCCCAGCTCAGGGCATGGCGTTTCTGCCGCTTCCAGTGTGATAACAAGCACACAAGGGCAGGAGGTGGGCTGAAAGTGTTTGGAAGGTGGTGGCAGGATTTCCTCCTTTTCAAGGCTGAGTTCCCTTTGCTTTCCTTATTTGTTTTCCTTTAAGTGAGGAAATCATTTGCAGGGAGAAGGTGGTAAATCTGCTTGAGTGGATTTTGCCCTGCTGTACTCATAGTTTGTTCCCAGAATGAAAGACTGATGCAGTTAGATTTGCACTACCCAACAACCAGCTTTATAGCAAGAAAACCCATGTAAGTGTTTTGGTATATGGAACTGCAGCACAGGTTATATAGAAAAAATAAAATAAAATACAAGGGGAAGAATATGTGTATTGGTGTACATTTGTGCATTCTTACATATTCTGTAGTTATGTATTTGTATAACACATTTTACCATAATGAGAATGCTCCTGTACTCCTTGGTCCTATTGACCTGCAAAAAAATCACGAAGATGTAGTCTCTTTTGTACTTATACACGCACAAAAAAATCTTGCATTTTTTTCCTTTGGTACTCAGCTACCCTTTGGTACATTATATTCCCCCTCCACATGCTACTGAATAAAATGCCTGCTGGGCTGAGAAACTTGTGTGATATAAGTTAAAAATCCAAGGTAATTTTTATCTGAACTTACAAACTTCAGAAAATGAGTCATCTTTTGATAGTTAGTGTGAATGAAAGTTTACAACTGCAATATTGCATCTCTTTCAGAGGCAGTAATACATCTAGAGGTTGAATACGCATAAAGGTTGAAGCAAATGTGTACACAATCAAAGGTGTTTCTCAAAGAGTTTGATAGCAGGATAACAGCAACTAACACAAACCCCTCAGATATCATACCAGGTGTTGCTTTCATACCATTTTTTCACTCATCAAAATATAGTCATGCTAAATTTACATTCGTACCATTATCTGAAAACCAGTCAAAACAAACAATTACACATTGACAGTTTTTGCTTTGGTGTTTCTGGTGTTGTGGACTTTTTATTTGCTTGTTTTAGAAAACATAGCTTCGCTTTACAGGCAGCCTCCTCCAGGAGGAGAGGACAGACTCAGGTGGAGCTTCATTTCTGATTGACTGGCACAGAGTAATTTCTGTCTGTTTGTCACTTCTGTTATATGGGTGTGCAACTTCTGTGTTGACTACTATGAAGTATAATTCTGTGTCACATTGGAAAGGCTTTATTTTGTATTATCAGGCAGAGATAAATTAACGTGACTCAACCAAAGGACGTGAAACCGTGTTGGTCTGCAGCTAGGATGCCTGGGGTACACTGTTATGAACGAGCAGCTGTTTTCTTTTTTCTCATGGGAAGGCTAACATCTTGCCATCTCTCACACATTCACAAATACACGCTTTTTTGCCATGCCACCTCCTCCTGCTGTCTTGTGTGGTGGCCGCTTTTGTCCACTTTATCTGTCATCCTTCATGTGTATGTACGAAAGAGTTTACTGAGCCCGTGAAGCACCGGGATGGCTCCCTCCTCATTTGCTGTTACACATTTTCTAAGTGGCCAAGGGTCATGCACAGCCGGTGGCATTATTTAAATTCCCTTCCTCCTCAAGTCCATGCCATGGCAACAAAACTCAGTTCTGCTGACTGGAGGTGGGAAAAACGGAAGCTCTAGGATTAGGTCAATTTGTGTTAGAATAACTTAATTAGCAGCGAGCTGTACACATACCACAGCTAGTAGATAGCAGGATTTGGGCAGCAGTGGGAAAAAGAGAGCAAGGACAATCCCGTATTGTCTGTGGATGGAAAACCCTCCCCACCATCTGACAGCACTTTGCTTCTCTGCTGGCACTGTCAGCAACTTTATTTCAAATGCAGCATGAGAAAGTGATATGTAATTTGCCTGATACTGACCCTCCTTTCGATGATCCCATAACTTAGCATATGATTTTCCTTTCAGCTGTTTCTTAAACCAGAAAGTAAGCCCCCTGGGAGATGTTTTATGGAGCATGGAGCTGAACAACTCAAGCCTGTTTTTGAATACCCCAACTGTATTTTTAATTGTCTTGTTCCAGAAGAAAAAAATCATACCCCATATAAACTAAGACTGATCATTACAATCAAGAGCTGTGCTGGGAGGATGTTTTTAGAAATCCAGCAGCACTTAATTTGCAATTCAAGGGACTTTGTTCCCACTTTTATGTAGTAGGAGTAACAGCATCAGAGATGTACATTAAAAGGGAGCTGCATGCTAGTCTGTGAAGCTGATACCACACTAATAGGTAATTTTAGTCCAGCCCTGACCACTGCTATGCCTGTGAAATCAGGCCAGTAATAAACTGAAGCATTAAACTCATCTTGAAAGAAAATGACAGTTCTGTTTTTTCAGAGTCTGGAGGAGAAGAAAACCCACAGCTCCTCAGTTTGGCATCTTATGCAGCAAATAACTTCAAGTGTCATAGCAGGCAGGAGATTTTTAAAAGCAGGTTCCCTCCAACTATGCTGCCTCTTTTCTCCATGCGAGGGAAGTGTTGCTAATTCTTGTTATGGCAGTGTTTTGTGTTTGCTTTGCTTGAGAGATAGCACTATTTACACAAAGCCCAAAAAAAGTGAAGCTAGGCTTAACAGCAGAAATTTCCAAAATGGAAGCATTCTGTATCCTGCTCTCTGCGGGCTCCTATGCAGACCTCTCCAACGCCACAGATCATTCTCCATCTGCATAGCTTCCTGCATTTTGAAAAAAAAAGTCAGTGCTGTTTCACAAAAACAAACCAAACAAACAAACAAACAAAAAAGTGATGCTCAGTGTTCTTCTCTCTTCGTTCCCAATTTCGTGTGGCTGTTAGTATGGGGCTGTGGGTTGGTGCTTTTTCTTAGGTTCCATACAGAAATGTCTGTGTTCTCAGTTTAGCAGGAGAGAATGTTTAAAAATATCTCTCTACCTGAATGACTGAGTCTATTTACTCTTTCCTAAGAGACATTGGCAGCTAATTATAAGGAGAAGCAAGCTCTCAGGAAAACAGGAAAGTAAATGCAAGCAAGGAATGTGGATTTTGTTGAGAGGAGTATTTTACAGTTTGGTTTGGCTATTGGTGTGTGAAGAGAGGATTCCTGGGACGAGCTTTGTGGCTGTCAGCCTTTTGGCTAGCATATTGTCAGCCAAATTATCACATCTGAAATTAGGAGAAAAAAAAGAAGAAGAAGAAAAAAACATTAACCTTTTTTTAACCCTGAATGGCTAAATATTGCGCTGCAAGTGCTAGCCCAGAATGGTGGCAAAGGCTGTCACAGATTGCAACTGATTTCAGATACAGAGAAACATCTGCATTCTGGCATTTGTTCTAAGTCCTGTTGAAGAGAAATTATAAAAATATATAAGGCTCATCTTCTGTCCAAAATTTTAATTGTTCAGATAATCGTTTTGGGAAATAATCTTGCTTTGAAGTACTGTAAAATTTCCTTTTTTTTTTTTTTTTTTCTTAAGGAAAGGAAATATAATTTATATATGGAAGTGCTTTTCTGGGAGAAGCAGGTAATGCTGTCAGTAATGTTCCCTCGTAAGACCTGTCATCCTTTTTTGAAGGGATTATGGATTGTCTTGTCATAGATAGGTCTCCTCATGGAAAATGAATGGTTCTACTGGACTATTTGACTCTGCATTTGTTTGCTTTTGTTTTTACAG
Seq C2 exon
GGACCATATTTATACTGTTGATATGGACACATCACATACAGAAGAAATTTATTTTAGCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002294:ENSGALT00000003608:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=PU(3.9=42.5)
A:
NA
C2:
PF0140314=Sema=FE(4.6=100)
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]