DreINT0088037 @ danRer10
Intron Retention
Gene
ENSDARG00000058543 | lama5
Description
laminin, alpha 5 [Source:ZFIN;Acc:ZDB-GENE-030131-9823]
Coordinates
chr23:9712460-9716210:-
Coord C1 exon
chr23:9716047-9716210
Coord A exon
chr23:9712569-9716046
Coord C2 exon
chr23:9712460-9712568
Length
3478 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
ATATTTCCCTCTCTGTGTAGTTT
3' ss Score
8.77
Exon sequences
Seq C1 exon
ATCAGCGTTGGGCTGCGTGGTCGAGTTCCTGTTCCTGGAGAGTATGTGTTAGTGGTAGAATACGCCAGTGAAGATCAAGCCCCTCAAAACCTTACAGTGTCTGTCAGCTCAGCAGGTGAATCCACTCATCAGGAGCAAATAACACTGCTCCACTGCAAATACAG
Seq A exon
GTGGGTTTGTTTGGCTTACGTGAGCCTTTTCTCTTTAACTTTGCGTTTTTGTTTTTTTCTTCCGAGGCTGGATGATTTTTTTTATTTATTTTTTAATTATATTAGTGAACTTTTCAAGATCAGAGAAACACATATACACGCACAAAATTCAGCACTGTTCTGGACAAGTCCCATACAATGAGTTTATAGCTAGCTTTCCATCCACCTATTTTCATGCGTATTTCGGCGATGCGCAAATTCTGTTTTTTACTGTTATAACTGTTGATTTTTGGCGCCAGTTAATCAAGAAGTGACGATTTTGTTTGCTTTGACTCGTTGGATGGAAACGCTGCTTTATTCGCACATCTTTTATGCGATAATCCAGTTTACGCATAAAGTTAATTTGCATTTTTGGATGGAAACATAGCTATTGAGCAACAATGACAAAATAGCTTAGCGTGTGACAACAACAACCAGAACAAATAAATAAATTAAAATAAATAAATAAATAAATAAATAAATAAATAGGTAGGTAGGTAGGTCGGTTGGTCGGTTGGTCGGTCGGTCGGTCGGTCGGTCGGTCGGTCGATGGCTGGCTGGATGGCTGGCTGGCTGGCGGGTTGGCTGGCTGGCTGGCTGGCTGGCTGGCTGGCTGGCTGGCTGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGTTGGGTGAGTGGGTGGGTGGGTGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGGTGGGTGGGTGGATGGATGGATAGATGATAGATAGGTAGAGAGAGAGAGAGAGAGTCCAGATATTCGAGAATTAAATTCCCTTAAATCATGTCTGCAATCCACATTTGAAATTAAGGGTGTAACAATGACTTCCAGTGCAGGAGCAAAAGCCTTTTAGCCACAATCATACCCAAAGACAAAGACTGCTGGAGTCCGTCTGGGAGATGAGAAATGTGTTGTGAATATCCGAATATAGCTAGTTCTGCATCAGGTGGTAAAGATTTACTTTAGGCGTTAGAATAACAATCAAATATGCTTCAGCAAAATGAATATACCAAAAGACAAAAACAGAAAGCATGAAAAGTCGTGTCTTCTGTTTACACCTGTCACATAATGGTGATACGGGGGGTGGGGGGGGGGTTGGGGAATTTGATGCAACTTGGCTTCAGTAAATTGAAGTCTGGACCAATTGAAGTCTACCAACTTTGTGCTTTTGTACTTCAGGTGTCCACTTGCAGCTTTAGGGCGTACACACACTATGTACAGTGGCCTTGAACCGGGCCAAAGCAAGCTTGTCCCCCCTCCCGTCTCCCCCGATGACCCGCACTCACATTACATTCAGGTTTGGGCACGCTTACGTCATAGATAGAGCGCTTCTGACCAGCGCATCATCGATGACGTAAGTGTGATCAGGCCCGAATGTAATGTGAGTGCGGGCCATCGGGGGAGACAGGAGGGGGGACAAGCGTGCTTTGACCCAGTTCAAGGCAACTGTACATAGTTTGAGTACGCCCTTAGGCGCGTTTTGCACTCATACAGCCCAAGTGAACCGCGCTCAAGCCATGGCTGGCCAAGTGAACTGTGCCTGAACCTGATTTAGGCCCCGTTTACACTGTGTTTTAGTTTGAAAACGCGTTAGTTTTGCTACGGTTACGCCATCCGTCCACACTACACCGGAGTTTTCGAGCGCCGAAAACGGAGCGTTTTGATTTTGTTTTCATTCTGAAACGCTGCTGCTCCGTCTCAGTATGGATGGGGAAAAACGGAGACATCTGAAAACGGAGGCAGGGCTGCAGAGATTCGCTACCTGATTGGGGCTTTCGTGCCATTGCGTATCCTTCCCTTATTCGTCAAGTCCCTTACACATGACTATAACACATGGCTTTACCGCTACCGGGAGACAGCAAACCAGCCTTCACTGTAAACAACAACATGGACACAGAAATGGGAGCGTTGTTTGCAGTATTGTCTGTTTTAGGCGCCTTTGTGCAGTTATTCATTTGTTACGTTCAGTAACAACTCCACCTCGTCGTCTGTCCACAAAAAGACCTCTCTTGCTTTCTTTGCCATCGCGTTCATTGTTCAACCAGCGTTTGTTGACTAACAATAACTAAATTTTTAATCAGAGTCATGTTCTGTACTTGTGTTTTGTGTTAGGTGTTTACTCTTAAGTCTTTAACTTTTATTTATGTATTTTTGTTTATTTTTTTACGTTAAAAGAGTCACGTATTTAACACTCTTTTTGACAACTGAATTGAACTGCTGTTTTTAAAACGCACATTTAGGATGAAACCTGCAAGCAAAGGACAGTTTATTCATACAATTGTTTATTATGAGATTTTTGGCTTTTCATAGAAATAAAATTTCCACAATACACTTTTCAGTGTTCCTTTTGTCACACTTCACCAATTTGCGTCTGTAGATTTCAGTTACAAAATACATTTTCAAAGGCCTTTTTCTCAAAATAAGGTTTTTTCCACTTACACTGAGACGTTAATCTCCTCTTCAGCAGCTTTACACATACCAAACGTCACAGGGATTTTGCTTACATAAATTGCCTGATGGATTGCATGGTGGCTCAGTGATAAGCACTTTCGCTTAACAGCAAGAAGGGTGCAGGTTTGAGTCCCAGCTGGGTCAGTTGCCATTTCTGTGTTGAGTTTGCATGTTCTCCCCGTGTTCGAGTGGGTTTCCTCCGGGTTCTCCGGTTTCCCTCACAGTCCAAGGACATGCGCTATAGGTGAATTGAATAAACTTAAGTGGCTGTAGTGTATAAGTGTGTGTGAATGTGAGTGCATGGGTGTTTCCCAGTACTGGGTTGCGGCTGGAAGGCGTCCGCTGCGTAAAACATATGTTGGAATAGTTTGTGGCTCATTCCACTTTGGCGACCTTTGAAATAGAAACAAAGCTGAAGAAAAAAGTTTGAATGAGCCTGATTACATTTTATTCTACAAATGTTTTTATTTTATTTGTCTTGGCTTTTGACAGAATTTTCTGAATTAATAAAATTGATCAAAAGTGATTAAAAATACTCTCTTTAAAACTGTAATACCTAAAAAAAATCTACAAAATCTTTTATCCATTGTTCAAATGTTTGTTCTTGAAATATATGTAGATTAGTGCAAAGTTTATAAAATATTGCCTCATTTGCATTCTTATAACATTTTAGAGACCTTATTACGTGTAAGATTAATTACGTTTTTAAGTAATTGTGTGTTCGGATGCCCATGCTCCATTTGTTTGTTTATTAGGTCTCTTTGTGGTATTTATTTCTAACTTTTCTCTGATAGATTGTGTATATATTTCCCTCTCTGTGTAG
Seq C2 exon
TTTTCTGTGCCGTTCAGTGTCTGTTGATGACATGAAGCGTGTGGCCCTCTTTACTATCTCGGCGAATGCTGAAATCCAACTTATTGCTGAAAGAAGCAGCTTCTTCCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058543:ENSDART00000045126:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.127 A=NA C2=0.000
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]