DreINT0088053 @ danRer10
Intron Retention
Gene
ENSDARG00000058543 | lama5
Description
laminin, alpha 5 [Source:ZFIN;Acc:ZDB-GENE-030131-9823]
Coordinates
chr23:9686678-9689355:-
Coord C1 exon
chr23:9689125-9689355
Coord A exon
chr23:9686792-9689124
Coord C2 exon
chr23:9686678-9686791
Length
2333 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTG
5' ss Score
6.13
3' ss Seq
GTTTCATTTTCTGCTCTCAGCAA
3' ss Score
7.05
Exon sequences
Seq C1 exon
GAGAGTTTCAGGCATGCTCAGACTGGGAATTCAGTGTCCCGTGAGGAGCTGATGATGGTTTTGGTGGCCCTGGAGTCTCTTCAGATCAGAGCGCTTCACTCTCAGTCGGCTCAGTCTGTGTCTCTGCGGGCCGCTGTGCTGGAGGTGGCTGAAAACATGCCCTCTGGTCGCCATGCCAACAATGTTGAAATCTGTCTTTGCCCAGGAAACTATCTAGGAGACTCCTGTCAG
Seq A exon
GTAGTGTGCTTTGACAAAAACAAGGTAGCAAATTGTGAAGTGCTACTGACTATAATGAGGTCTTATAAAGTGAAAAGTTCAGGGTTTCTGACAGGAACAATTTTTTTTTTTTTACATTAAAAATCCTCAAATTCTCTTAAAGGGACAGTTTATCCAAAGAGCTACTCCTTATTTACTCATCCTCAAATAGTTCCAAAGCTTTCTTTTTTGAAGATATTTTTAAGAAAACTAAAAACCTGTAACTATTGACTTCCATAATAGGACAAACAAATACCAAAGAAGTCAATGGTTACCTGTTTTTAGCTTTTTTTTAAATATCTTCTTCTGTGTTTAACCAAAGAAAGAAATGTTAAACAGATTTTTTTAATGTTAAACTGGACTTAATTTTCATGTCTATTTAATTGTTCTGTCTAAAACTTAAAAATTATCTAAACTGAAAGTCCCCTTTAATGCTTAATAATGCATTTTGTAACATCCTGTGCTGCTGTAGACCTTTTTTTCCCCTAGTCCAAATGTAATTCACTATATTACGACTACAAACAAGACCACCATCATGATATAGGTCTTGAATATTGTTCATGGTGGTCACTAAAAACCACTGTAAAAGATATGGACGTAGTATCCTTGACATCACCCATAGGTTTCTGAAGAGCGCAAAAGAAGCTACAAGTAGGCATGGCCAACCATCGACATTTTGTTTGCATGTCATTGGCGGAGCGTCAGTGGAGCTACAGATTCCTCCTAGCATTTTGCTTAGACAGTGTTTTCTTTGGGAGAAATGCTTAATATTTCATTACCTGCAACACTATATCAATGAAGTGTTTAGTCTTTAAAAAAACACCGTTGTAGCAAATTGAGCCACTAAGCACTGTTCTTATGACGTTTTTCTACAGGAAGAAATTTCTCCCAAACACTTCAAATATAGTCTGTGTTAGGAAATGCAAGGCTATTTATAAAATCCAGGCATAACACTGTATGACAACATTTCAGATGTTTTATAGCCTACAGCTAATCCTTCTGTCTGGTTCTGGAGTGCATTCAAGTTCTAAAGAAAAATATAAATAATAAATTATCTTAAATAAAATAAATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAGATGTGGTTTACACGTATTTAATTTCACTCACCTGGGAAATGGAGGCCACTTGAATGGTTTGTGAGCACAATTAAGTGCACACAGCATGCCATGTCATCTGATAATTGTAAGAAATAATTCCAAACGGCAATTGCCTGTGTAAAGCCACATTAAACTAAAAAAAATATATGTATATATGATGTACATGCCGAGTTCAGCAGCTAATCAGCCGGAATCAGATGAGGTGAAATGATGGTGACCAGCGAAATCTAGCTGTCACTCAAGTGGCCACACCCTTAATTATGCAAACTTAATATAACTGAATAAAAACTAAATGCATAAGTTATAAAAAAAAAATCACCCCCCTCAAAGTTGGCACAAAGGGTTATATTAGCTATATGCACCAAAACCATCTTTTGTACCAGGCTGTAAAACATGTTTTTATCAGCTGTAAAATTGGCCAATTAAGCATTGCAGTCAGTAAACATCTGGACTTCTTACAAAGTCCCCATTAATGACATACTTTATGTCAGGTGCATATAAAATGAATTAACTAGTCTTCATCAACTCATATATTTGCATAAAGTAAATTTGGTTAATGGCTGGATTAATTATTGCTTAATAATTTTGCCAAATCAGAACATACAGAAATTTACAACATTATTTTCCTAGCGCAGATTGTAATTAATCAATTGAACAATTTATCTGTTCAAGTTAGGCCACTGATTGAAGATTACAGTACAAACTTTTATTTTCAAAGTCTGACTATTTGCTTCTGCTTTTGGAGTGACAATCCTTCACTGGCAAGACCATCGAAAGCTCAATTGGCGCTCTAGGCAAACGACGGAGCGGGAGGTTGGGGGAAGGGGGGTGCATATCGGCCATATTGTCCATGCTTAAATCAGCCACTTGTTCTCTGTCGACGTCAGTTCACAGACAATTCACCACAATATACTTGACCACACCCCTCTTACCTTTAGTTTGCTATGAAAGAATGATCCACAAAAAGCTCCTTCAGCTTCAGTTGAATGAACATCAACATCCTAAAATAAAAGCTATATGGAGCTATTTTGGAGCTAAAGAAACAACAAGATAAAGCCATCACTATGAGCAACCAAGAAATACTGATAAATCCTGGATAAAGTTGTTCAAACTGTGCTATAATGTTCATACATGTTTCATTTTCTGCTCTCAG
Seq C2 exon
CAATGTGCGCCAGGGTACTACAGAGACAACAAAGGTCTTTTCCTTGGGAAGTGTGTCCCCTGCAACTGCAACGGGCACTCGGATCAGTGTCTGGATGGTTCTGGCATATGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058543:ENSDART00000045126:41
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:
PF0005213=Laminin_B=PD(44.9=80.5),PF0005319=Laminin_EGF=PU(50.0=24.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(44.7=44.7),PF0005319=Laminin_EGF=PU(34.7=44.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]