DreINT0088165 @ danRer10
Intron Retention
Gene
ENSDARG00000002084 | lamb2
Description
laminin, beta 2 (laminin S) [Source:ZFIN;Acc:ZDB-GENE-081030-4]
Coordinates
chr23:20253816-20257219:-
Coord C1 exon
chr23:20257060-20257219
Coord A exon
chr23:20253953-20257059
Coord C2 exon
chr23:20253816-20253952
Length
3107 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GTTCTAATATCGCATTACAGAGC
3' ss Score
5.85
Exon sequences
Seq C1 exon
ATCCTGGATGGTGAGCTGTCCGATAAGTACCGTACTGTTCAGGGTCTGATGGACAATAAGGCGAAAACCATGCAGGACGCCAAGCACAAAGCAGAGCAATTGAGAGATGAAGCCAAGGGGCTGCTGAAAGATGCACAGGATAAACTGCAGAGGCTGGCAG
Seq A exon
GTGAGTGTGTGAGAGTGTCAAGTAAAAACACAGTGGTACAATTCAGTTTGACTGCTTTATTAAATTCGAGATGCATGTTGGATATTAGAGATGGGCAGGGAGTACATAACGTGAAGTTTCCAGACAACAAATGCAAAAAAAATTTTAAGTTACAAAGATGCATGTAATAAAGAATGCTAAATCAAAATACATTTCTCATGTAATCACACTACAAACATCTTACAGCCTCCGAGTCTCTGTCTGTTGTGATTCGGTTGAGACATTTATAAACATTTGGTCAATACATTTTATGAAGACATATTTTTCAATGTATTATATAAAATATGAATATGATTTTATATGTTCTTTTAAAATAATTTTAGTACATTATGATTATTTAAATATATTATTTAAATATATGTTTAAGTGCTTAATAATTATGATAAAAATAATTATGAGCAATATCCCACGCGTAGCAGTATGATATGGCAGTATATCGGCACTGGTGGGAGGTGTGCATTGTGTCCCACAAGTGACAATATACAGCCATATTGCACTGCTACAAGTATACAACAGTTCGACGGCATAATCGTGTATATAAAAAAGAAAATGAAACACGGAGAGTCTAAAAACCCTTTGCTATGAGGAACTACTTTCTTCCGCCATTCATTCTCATCTGCAGCTGACGTCAGAACAGCAGAAGCTGTTACTAATTCACCAACTTCACTTTAGAGCTAGTGTTTGAATGATTCTCTAACATAATGTCTAAAGTGACGACAAAACAGGTGACTTTGCTGACATTTTAAGATTATAAGGCTAAACGACATGAAATGCCATCAGTCTACAGAGATTTCCCAGTATTTCTCTGTTGCAATCGGGAGATCACAATAATTTACCCCGAAAAAGCCAAAAGCAACGCAAACACTACCAGATTACTATGGTATAAATACAGCACTACAACACTCAAAAGAGAGAAATCAAATTAGAAAGTCACTTACCAGCTTAATAATAATTTGATCAGCTGAGTTTTTTTCTTCTAAAGGCTTATTATGCAGTCTCTGTCGCCATCTTGTGGCAGAACATCAATCGTCTTTACTCTGTTCAGTACGACGGATTGATGGATGCAAACATGCATCTCTGAAATTCTAAATATTTCAAATAGGCACTGTCCTTATAAATAAACTGCATATTTAAAATCTAAACAACTACATTCTCACTTAAAAAACCTTTAAAAGTTAGACAGCTGCAATATTTGTCAAACTGTAGTGAGTTTATTGATCTGTTGTCACTATGTTGGCGGAGTAATACAGAGGGATGAGAAGGCTGTATGAGTGATATTATTGCAGAATATATAGTTGATTTGTCATTAATATTACAATATTATACAAAAATATATTATTAATAAAATAAAATATGTGTAATTAAATACTTAAAATATTTTATCTGTAATAATATGTGTCATTTAAAAATATGTGTAATTAAATACTAATTAAACTACTTAAAGGGGTGGTCCAGAATGTTATTTTTAAGGCTTGGTTGTGTTAATAAGATGCAAAGCAATGTGTGCTCATGTTTAACTTGAAGGAAATCGTGTTATTTTTTCATAAATCTCACTTTGATTATACACAGCTACTCAGCTAACATGAAAACGACTGTCATATTTCCTAGTTTCTCTAAAAGGCCCACCCTCAAGTGACTCTGATTGGTCATCATCATAATATGCTGTGATTCGCCGATCGGCTCCACGTCACGCCCTGACAAGCACGCGCGTTTTGTGTAAACAGTCAGTCAGTCAGTCAACACGTGTCTGTAACGAGTGAAAATGGGATGCGGCTCCTTTAACTGTTTCTGTGCCTTTTAGTGTGTTTATGCGTGTATACGATGAAGTATCTGTAACACGAGAAGCGCATGTGCGCGGGAGAGATTTTTATTGTTCTTTTTCTCTCATGCTCGGATTAAGTTATTTTCTATGGTGACAGAATAAAGCACAAGATGTGAGATGAGACCTTTGTGAGCCTGGATTGATTTGTTTTTGATGTTACACTCCAGTTGGGAAATCATTGCTGTATTTTTTTTAAATCAACGCGTTACAGGACGTCTTTCATGCATATGCGGAATATGCCTGTGTAAGTAACATGAATCGTTCACATATCTTTTGCGACTTTATTGTCCGAGTTGTAAAACGCATAGCAAAGCTGCCTATAGAGAGAAACTCTGCCGTCTCCCACAGAGAGACGCAGGTGCTGGCCAAGAGTGCGTGTATGTGTATGTGTGTGTGTGCGTTTACAGCCGTTTGATAAATATAGATTTGTAACGTTAGCTAAGTCGTTAGCGGTTACCATAATTTCCCGTTGTTTACATCTTTGCTACAACACACCGTTAAAGTTAGACACTGTACATGTCATGATCAATTTTAACAAATAAAAACACTTACAGGTCATGACTCAGAGTTCACAGCGTCTCCTTGCTCCATCTTTGAGGAGATTTTAACTGAATCCAGCACTGAACTGGGAGAGATTCTGGAAGCTGTGTTTTGTCAAATCATGCTTGCTATGTATTTTATAGTTCTCTGGAACATAATTAATATTGAACTGTAAGCACTTCTGTGTTTGGGTCGTGTCATTTGGAAGCCCAACAACAGAAACAGAACAGCTCTGTGGAAACAGCAGGATGGCATTTCTCTCTCTGCAGTAACGTTACAGCGCCTATGGCCACGGCCTTTACCTGCGCAGTGTGGGATGCGCAATAACGAACTTTTGTGATCTCACAGGGGGCGGAAGTATTTTTTGTAGTCCCCAAAATTCGTTAATTGTAGGCGTTGCTAAGCTAACTCTGTACAAATCAAGGTCTCCCTTTGCATTAAACTTTGAATATTTTACATTCAGAGATGCTGTTTATGTTCACACAGCTACATTACACATCAACTGAAGTTTAAAATATAATATCGTAGTGGACCACCCCTTTAAGTCAGACTGTTTTCTGAAGCTTATCTGTCAAGTATTTTAAAAACAAATGCTACCCTCTTGTGGTGACAAGCAATATTGACAATGTGCCATTTTCTTTTGAGGCGGTTATTGTTTTGTTTCCTCGTAAGTCTGATCTGGGTTTGTTCTAATATCGCATTACAG
Seq C2 exon
AGCTTGAAAAGGACTATGAAGAAAACCAGAAGGTATTGGAAGGCAAAGCCAGGCAGCTGGATGGCCTGGAAGATAAAATGAAGGCGATCCTGAACGCCATCAACAGGCAGATTCAGATCTACAACACCTGTCAATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002084:ENSDART00000147326:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.630 A=NA C2=0.311
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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]