DreINT0132548 @ danRer10
Intron Retention
Gene
ENSDARG00000007560 | sema3bl
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3bl [Source:ZFIN;Acc:ZDB-GENE-030131-2956]
Coordinates
chr8:26552026-26554824:+
Coord C1 exon
chr8:26552026-26552159
Coord A exon
chr8:26552160-26553651
Coord C2 exon
chr8:26553652-26554824
Length
1492 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
CTCCTTTCCTCTTCGTTCAGGTG
3' ss Score
10.2
Exon sequences
Seq C1 exon
TGGAGGATGTGGATCTGAGTGAAGAACGGGTTGTTTACGGCACTGAGAACAACAGCACCTTCCTGGAGTGCGTCCCTCGGTCGCCGCAGGCCACTGTCACATGGCACATTCAGAGAGATGACTACTTAGGGGAG
Seq A exon
GTGAGAGACTAAAGCAGGTCGCACACCAGAAGCGCCGCGCAGCGCCACGCAGCGCCATGCATTTTAGAATTCTAAACAAGGGTTTCTATCAGGATACACACACCCGCGCCGCAAGTCGGCGGCGCCCGACCACAGCTCAGGACGCAGTTCATTTTTCAGCCGCGCCACAGAGCGCCATCTGATTAGTTTCATGTTAAATATCATTCGAAGGTGCGCGTCTGGTGTGTGATACTTTAAACTGTCATGTGCGCGCCGTGTCGCGGCGCCGAGCGGCACTTCTGGTGTGCAACCTGCTATACTGTACAATACAACAAAATGACATTTAATATTTAAAATGACACTGAAAATATCATGACTTATATTTCAGTGTCATTGCATTCAATGAGGGGTTTGTAGATATTTTCATGCCGGGGATCTCAATGGTTCTTTATGTTTTTATTAAGTACTTTATGTTTTTTACACCACAGTCTTTATGCATCTCTGAAACAAGAAACAAATTTATGCATTTTGACTTATTATTTACTGCTTATTTAGCTAGTTGTGTTTGGGGAAACTAAAAAAGTCAAACTTTTAAACTTTTTAGAAATAATATTGTCATCATCTTTGTTTAAACTACACAAATCTGATTGTCTGAAAAGGGTGACATTGTGCACATTTATTATGTGTTCAGTCTAGGCATGCACAAATACCTGACAACCAGATCACTTTCAATTCATTTTTATAGAATGAAATTAATGTGTGTTAATTTTACATGACTTTCATAGCCTAACAGAAAAGCAATAATTAATAACTCACATCATATCCTGAAAATAAAAAAGTGAATGTTGAAACATTAAAATATGTTAACAAAAAAGTGTTATGAATTTGGTTATATACGTTTTATTGACCATTCGGTGCTCTTCAGGTTAGTTAAAAGGTGCAGCATGTAAGTTCGACACCCAGTGGTTGAACTAGGTATTGCACTCCTGGTGAAAATAAAATTGAACTTTAGAACTGTGATTCAGTGCAAGTCAACAAGGCCGTGTTGTGAGGGCACGGGGGTTACAATGTAACCTGCTCACCCAATGTTTACGTTCATAATATTTATATTACATGCAAATTAATAACACCTCATGTGGAACTCTGAATCTGCGTCTCATTTGGGAGTCTTCCTGACTGAATGAATCAAATACACAGTTTTTCACCAAGACAACCCGAGGTGCTGAAATATAATTGGCTAAACTGGCAGTGGGTGGGTTAAAAAGACCAAAACAAAGACAGCGTTCTTCAGAATATCTGACTTCAGCATTTTTTCCCAGATAAACAATAATGTTTACTTAGCATGTTTGTTAAATATCTGCAAACATATTATGGTATTTTTATGATTTAGATGTTTTTGATTAATTTGATTATAGTTATGTTGCATTAGAATATTATTGTGTTGCATGTGGTTATGTGGTAAATTCTGAAAGAGATTTAGTTTCAGCCTTTTTCTCCTTTCCTCTTCGTTCAG
Seq C2 exon
GTGGTGTTTGATGAGCGCATCATTAAAACAGATGACGGTTTATTATTCCGGCGCGTGTTGCGGCAGGACGAAGGCATCTACGTGTGTCGATCTCGTGAACATGGATTTACGCAAACTCTTTCCCGCTTTTGGTTGGACGTCTTAAATGCAGATACCCTTTCAGACCTCCTATCACGAGACAGCAAATATAAAGTGTGGTCGCCATGTCCCGCCAACTCTGCCACGATGAATCGCGGCCCGGCAAGGGCGTGGTTTAAAGACGTCTTGCAGCTGATTGGTCCTTCAAACCTGCCGCAGGTGGAGCAGTACTGCGAACGTGTTTGGTGCAACGAGAAGCTGAGGCGCAAACACAAAAGCATGATGGACAAATATCGGCAAGCGCAAGACTCAGCGAGGAGAGCGAGAGTCCAAAAGAGCACAGGAGAATCCCGACATCGCTCTCCACGAGATGTTCACACACAACAATAAAACACAGTGAAGAAAAAGGACTTCTTTGGACAACTGGATGGATGCTCTTACACACTTTAACATACATGTTTTTGTTTTTGTTTGTGGTGATGTAAAATATTGTAGGTTTGTGTCTAACAGTCCAATTTTTTTCCCTTGTGTTAATTAGGACATTCTTGAGCGCTCTCTCCAATTATCTCCGTGACCAAGACAGCCGGCCGCATCGCCTCACAGTAGACCATAGCTAATGTTAAATGTCTCACTTTAAGACTCAGCAGCTGTAAAACCTTTTTACTGGAACAAATGAGGGCAGACAGGATGGGACTAGTAGATTGGACCGCCGCCACTGCTAAAACAGGTGCCAAAAAACATGCATTCATTTAAGATACATCTGGCTGGGATACAACTGGGCATAATGCACAGAGACTTTTACTCAGCAAAGAAATGTGGCAGCGCTCAACAAAACTCAGCTTGCCAGTATATTAAGCTATAACGGAATAAAGTTAAGACTAATTAGACTGTTTTCTGGTAACTAAATCAAAGCTTGACGACTGTTGAGACTTCAGCAGAATGGATTTTGCTCTTAATTAGCCATCATGAGTTTATTTTTTTCAATGTAAAATTTTTGTAACACTTTATAGTATGGTTCACTTTAGCATTAGCCAACATGAAATAGCAACCAACAATAATTTTACAGAATACATTCATACAAAAGGTTCTGGAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000007560:ENSDART00000046863:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.230
Domain overlap (PFAM):
C1:
PF0248011=Herpes_gE=FE(26.3=100)
A:
NA
C2:
PF0248011=Herpes_gE=PD(61.1=65.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACAGCACCTTCCTGGAGTG
R:
GACGTCTTTAAACCACGCCCT
Band lengths:
349-1841
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]