DreINT0088123 @ danRer10
Intron Retention
Gene
ENSDARG00000045524 | lamb1b
Description
laminin, beta 1b [Source:ZFIN;Acc:ZDB-GENE-041210-197]
Coordinates
chr4:25750428-25753625:+
Coord C1 exon
chr4:25750428-25750797
Coord A exon
chr4:25750798-25753440
Coord C2 exon
chr4:25753441-25753625
Length
2643 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGT
5' ss Score
7.76
3' ss Seq
ACTTTTTCTTTTAATCTTAGTGA
3' ss Score
7.19
Exon sequences
Seq C1 exon
CATGTGACTGTGACCCAAGAGGCATCGCCACTCAGCAGTGTAATAAAACATCAGGTGACTGCGTTTGCATAGAGGGTGTTGCCGGCCGCAGGTGTGACACGTGTGGGCGGGGCTTTGTAGGCACCTTTCCAGATTGTGAGGCGTGTCATTACTGTTTCCGTGAATGGGATGTTAATGTGGGAGAGCTGACCAATCACACGCAGAGGCTGGTGGATACGGTTGAGGAAATGAAGGATTCGGGGGTGGCGACACCATATAAAGACATCATAAAGAGTCTGGACGATGAAAGTAGGCAACTCCGAGAGATACTGGAGGATGACAAGGTTCAGCAAACTTTCGCACACACGCAGAGGATGATGAAGAAAGCTAG
Seq A exon
GTATGTAGAAGAAATGCATTTATTTTTAGTAGCCAGTTATAAAACATAAAATTTACTTTATTTTTGGGCCCTATCATACACCCGGCGCAATGTGGCGCAAGGCGCGACGCAATAGATGTTTGCTAGTTTCAGCTTGGCACAAGAGTAGTTTTAAGGTGTGGTGCCACGCTGTTTAAATAGCAAATGCATTTGTGCTCATATGTGCGCCCATAGGTGTTCTGGTCTCAAAAGGAAGGCGTTCTGAGGCGCATTGCTGGGGCGTTGCTATTTTGAGAAACTATAATAGATTTTTCAATAGACCAGAACAAACCCAGTCTTAAGTCCAGCGTAGAGTTGCGCCTCGCTTTCACAATGCTTAATACACACAAGATGTAGAGCAATGTGCAAATATCTTTACATATGAAAAATAATTAAAATATTAACGATATATATAGGATATAATAAGGATATATATAGGATATAAATATAAAGGATTAAAATGTCATAAACCTTATTATTTTCTAGCCTACATAAATATGAAAAACCACTGCTTTTATGCCTTTATCTCAGGAGGCTTTTTCAGTTCATTCAATTTGCTTTTGTATAATGTTATTATTATTGGCAGTATTATTTATTATATGCATATTTATATTTGTTTTATTAAAAACAAGCTTAAATTTGCCCACCTGCAGGTTTTAGACCATATGGGGCACAGCATGTAGGATATAACTCAGTATTTTGAACACACTTTGTTATTATCATTCATTTATTCATTTGCTGGAAATTAGAACTAAAGTTAAAAAATTGTTTTGAAACAAATGTTTGCGCTAACAAACGAAATTAATTATCTATAGGCTAATTGATGTCTGTGCGTATAAGGTTTCCCTATGCACGAGAGCGAAAGTAAAAGTTATTAATTTATCTCTCATTCTCACACTGTAGATGCTCTTTTTAACAGTTTTCTTGCTAGTGAAATGCTCAGTTTTTCCACTTCCACTTACTTTACGTCATGTAAATAGCAAATGTGCCATGGCACAACTGGATCTTAAAGGGAATCGGAGATGAGACTCTGATTGGTTTATTCTCAAAACACACGTATAACTCATTAAGAAAATAAACTTAACCCTTTTAGACCATGCGCCACAACGCAAAGTGGATTTTTCCGTCCTTAAAATAGCAAAAGTAGATTCTGACAGGCCCTGAAACTGTTTGCGCCCTGCGCTTTGCGCATGGACCGTCAAAATAGAGCCCATTATCTTAATTATTACATCTGTTATTTTCATTTACATTTTATTTATAAATATTAAATTACCCCATTTCACATTTGAGAAAATGCTTCAGTACATTAAGTGCTCAATACTAAGGCCTGATCAACCATCTAAAGTTGTACAAGGCAAGGCCAATATACAAGATCAAGCATTTCCCCGCAATGTGGGACTTATTATCAATTAACAAACTATCAAAATCATAACACTGTCCTGTTGTGACAAAGGGAATAAATCCACAAGCAGTTCTGTGTTCTTTCTGGTTTGAGTTGATGGTGAATAATAAATGAACTAAATAAATACAATCTATTAGGCAGACTGAGATGCAAGCAACAACTATCAGTAGAATTAGAAGATAATCTTTAAAAGAACAGCGATAGAAAAATGTATCTTTCTAAAGGTAGATCCTAGTGATGGTGTTTATATGGAGAAAGGAAGTGTGCCAGTACTGAGCCCTGAAGCAACTTACTCCTCCAAGAGACCCTAAAAAACCTATCTGAGAGGTAAAATTTGAACCTGAAATGTTGTTTATCATGAGGATAGATAGAATAATGTGGTGGTTAGCTGTTTAAAGCAGGAGACAGATTTAACAAGAAGAATATCATTTACTGGTTATTTTAAATCTAAGATACAGTTGCATAATTTTCTTATTTCTTTTAACTTAGAAATACATGCCTTCTTTTTTAATTTTTTTTTTGCATTTATTATTTTTATCGAATTTTATATTATTTTGCCCCATTTTTGTGCTTTATAAATAAAATTAATGAAATGATAATCTTTAAGAAACTGTTTTGCTAGTTTTGCAGAGAGCAGTCGTAGTTAAATGTGAGGTTTTGAAGAAAGAAAGACTGAAAAAAAAAACTGAATAATGCAGTTTCTTTTCTGCAGCCCATGTAAGAGGATGCTGGTCTAAAGTTTTCTAAAACTGACCAGTTAAAGTGATTTTCTTTTCTTTTTGGGTTAATCCAAGCCTGTTAAATTTTGTGGGAAAGTAATCAGTTTATGCTTTACTAATTTGACAGTGCGTGCACGTACAACTGAAGGACAAAGGTCTTGATGAAGATAAGTTCATAGGATAAAGTGGAAAGATAGGTAGGGTGATTGGAAGAGATAGGTTTGGTGACTTCAGGCCACCAATCAATTTAGATAAAAAAATAAGATAGATAATAATACCAGCAACAACAATAACAACACAATAGAAATAAAAATAAATGAAACATTGTGAATACACCTAAACACAGTATTGAGATTTGAACACAATTTAATAAATGAAATGGGGGGGTTGCGTGCCAGAAAATTGTTGAGTACCAGTCACAAGTAAATGGAGAAAGTTGAAACCAGGGGCATAGTGTCTGTAATGTGATCTTTTACACATGTTGACTTTTTCTTTTAATCTTAG
Seq C2 exon
TGAGACAGCATCACTTCTGAGAAAGTCTATGGACCGATCTGAAACAGACTTGGACATGGTATCTACTGATCATCACCGGGCAATTAAGGACCTAAAAAGTCTGACCAAGGAGGCCCAAAACCTACAAGAAATCACCTCTGATAAACAGCAGCAGGTTTTGAACATAAAGCATTCAGACCCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045524:ENSDART00000141133:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.800
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(0.1=0.0),PF0005319=Laminin_EGF=WD(100=41.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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]