DreINT0088140 @ danRer10
Intron Retention
Gene
ENSDARG00000002084 | lamb2
Description
laminin, beta 2 (laminin S) [Source:ZFIN;Acc:ZDB-GENE-081030-4]
Coordinates
chr23:20285691-20287158:-
Coord C1 exon
chr23:20286970-20287158
Coord A exon
chr23:20285871-20286969
Coord C2 exon
chr23:20285691-20285870
Length
1099 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
TTTTGTCTGCCCTTTGTTAGCTT
3' ss Score
6.49
Exon sequences
Seq C1 exon
AATGCAACTGTAATGGTCACTCCAACCAGTGTCATTTTGACATGGCGGTGTATTTGGCAACGGGGAACATCAGTGGAGGTGTGTGTGACAACTGCCTTCACAACACCATGGGCAGCAACTGTGAGAGCTGTAAACCTTTCTACTACCAGGATCCAACTAGAGATATTAGAGACCCTGGAGTCTGTGTAG
Seq A exon
GTAAGTGTGACTACTCACTTACTATCTTTCGGCTTAATCCCTGATTTATCGAGATATTTCCAGCTGCAGACCTACACACACACAATCTAGCACACACGTTCTAGGCAACCTCCTATTTGGTTAATGACAGATCAGTCTTGTTCTAATTTGTCTTGTATAACGACGACTAACTGCTTGGGAGCATTATCGCCACCTACTGAATTACACAAGTATGGCGATCAAGACCGCCCGTGCTATGATTGCCATTCATTAGACTGTGAACAGACTCCCATTTTAGGTATTATTTCATTATTACAGTATATCGCATCAAACATTTTAATGTCTGTGCAGTTTTGGAAGTCAAAGTCTAGTTTGTTAAAAATGTTAAACTAGTTAAATTGAACCTATCCAATTTAGATCGTTTATAAATCTCTGAGAAAATGTATCTGCAAGGCCAGCAATCGAGTATCTGCTATATTGACTATATTGTCAGATAAATAATGACTGATCATCTATGATGATCGTGTGGCAACATGCTTCACTACAAACCCCAAAAAATAGAAAAACCCTAAAATATTAAACTACTTAGTAGTTAAACATGCAAAAACCTGATCTCTACCATGTGGGTACAATAAATTAAGTAAAAAATATATTTTTTGCTATTTAAATTTATTTATTGCAATTTCTCCTGGAGTTTCATTGGAGAACTGTGGAAAAAAATTGAAAACACTTCAGTCTATTTTATTTATCGGAAACAATTTTTCCCATTCGCCCATCACAATCACCATATTTGTAAAATAGTATACATTATTGATTATTGTGTACAATATTTATTTACAATATATATAAAATATATTGATGACGATGTCCGAGAAGACGTTAATAACATTAATATGCATTGTGACCATATATGGTTTGCCTAGATTGTGTGTGCTGGATTGTGTGTGCCTGAAACAAGTGTGGGTCTGCGGGTCTGCAGCTGGATATTATTGGATTTATCAGGGGTCACCACAATGGAACAAACCACTAAATACATATGTTTTACACGGCGGTTGCCCTTCCAGCTGCAACCCAGCACTGGGGTATAATAAACAATTGGTTTTTGTCTGCCCTTTGTTAG
Seq C2 exon
CTTGCGATTGTGACCCAGATGGCTCTAAGAACGGTGGTGTTTGTGACGGCCATGATGACCCTTCTCTGGGCATGATTGCTGGACAGTGCCGCTGTAAAGACAATGTTGAAGGTTCACGCTGTGATAAATGCAAGCCTGGTTTCTTTGGCCTGAGTGCTAGTGATCCACGTGGTTGTCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002084:ENSDART00000147326:10
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:
PF0005319=Laminin_EGF=WD(100=95.3)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.1)
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:
TGGTCACTCCAACCAGTGTCA
R:
ACCACGTGGATCACTAGCACT
Band lengths:
349-1448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]