DreINT0115663 @ danRer10
Intron Retention
Gene
ENSDARG00000021987 | plecb
Description
plectin b [Source:ZFIN;Acc:ZDB-GENE-100917-2]
Coordinates
chr16:5578743-5580709:+
Coord C1 exon
chr16:5578743-5578826
Coord A exon
chr16:5578827-5580604
Coord C2 exon
chr16:5580605-5580709
Length
1778 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
ACGTTTTTTGTTTCCTCCAGGAC
3' ss Score
12.61
Exon sequences
Seq C1 exon
AAACTTCTGGAAGAAATTGAGAAAAACAAAGAGAAAGTTGACGAGTGTCAGAAATATGCCAAAAACTACATCGATACCATTAAG
Seq A exon
GTAAGAGACAGCTGCAGAGACATTATGTACAGTTTATGACACAATCAAGAACTGCGGCTGCATTTGAAGCTTTATCTATTATTTTCCTTAAACTAGAATGACACAACAAATTTACGGTAGATTTACAGTAGGCTAAATCCATTAGGGTGGGCGAGGCAGTGGCCCAGTTGGTAGTGCTGTCGCCTCACAGCAAGAAGATCGCTGGGTCGCTGGTTCGATCCTCGGCTCACTTGGCGTTTCTGTGTGGAGTTTGCATGTTCTCCCTGCCTTCGCGTGGGTTTCCTCCGGGTGCTCCAGTTTCCCCCACAGTCCAAAGACATGCGGTACAGGTGAATTGAGTTGGCTAAATTGTCCGTAGTGTATGAGTGTGTGTTTGAATGTGTGTGTGGATGTTTCCCAGAGATGGGTTGCGGCTGGAAGGGCATCCGCTGCGTAAAAACTTGCTGGATAAGTTGGCGGTTCATTCCGCTGTGGCGACCAGGGATTAATAAAGGGACTAAGCCGGCAAGAAAATGAATGAATGAATGAATAAATCCATTATTAATGTAAATTAATTCAAAATGTTTAAGGGTGCTTTCGCATCTAGACCTTTGTTTCGGAACCTGGCACATTTCCCCAGTAATCGTGGTTCGTTTGGCATATGGAAATCCAGCAATCTTCCTGAGATCTGCGGAAAAACAATCAGTCCAAGACCGCCTGAATAAGGTGGTCTCAGCTCGATTGAAGCGAACTCTGGAGCGGATCGATTGTAATGAGAAAGCAATACGATACAATGAATATATGGTTATATGAAGAGAGAATTCTGAGTAGGGCGGGATGTCATCTCCACCACTAAATGTGCGTTTCAGAACAAATACGAAAGGGAAAGCATCCTGAACTATTAACGAGAGCTGTTAATCCGTTTGGAAAATTGACCTAACTGCAGTCTTGGTTTATCTGTTATTTCTCTCTTTAACGTAACGCGTATATATAGTTCTAGCCAACGACTATGGATGAGAAAGTCTTGCCTCTGATTTATATTTGGTAACGATGTCTGGGTGTCACCATTCAAAGTTAAAGTGCAGCTTTTTGCTTATAATGTCTTATCGCTCTTCATCATAAATTAAAATAAGGACGCATGACAGCTGAGCGGGACTCTGAAAAATAAACTGTGGAACTCTGACTAATGTGACGAGAGTTTACTCACACGTGACTTGTTTTAGCTATTTTGGTCCTTTTAGAAACTTTGCCGTGTGAACGCAAACCGCAAGTGCAACATTGTAACAATTTAAATCCCTTTTTCAGAACAAAACAATCGATCTTCATGTGTGAAAGCACTTTAAATTTGATGGGAAACATTTGATTCAGTACTAATTGTTGTTTAACTTATTGTTAAACTTTTGAAACCACTAACATTTTCCACCATTCTGTGCTTTAGCTCAAGATGCTAACATCAACTAGACAACACATGGTGTGTCTAATACTCAGTGTTATGTATTTTTAATCATATTATTGATTTTAGAAAGTGAATGTGAAATTCACTGAAATATCACAGTAACAGAGTTGACAAATAATTTATCTTCTCTTGGTGAATCCTAAACATTTTGTAAAAATTACTGAGAGAAGAATATTGACATGCCAAAAAAACAGATAACTTGGCATAATTTGTGTTGTTATTCAACACTGTTCATTAAAATGCTTGTTTTTATTTAGAAGACGCAAAATCTACCTCCAAGTCTGTAAATTTGTAATTGTTTACAATTTGTTTTTTGTGGTGTTACGTTTTTTGTTTCCTCCAG
Seq C2 exon
GACTATGAACTCCAATTAGTTGCCTACAAAGCTCAAGTCGAACCTCTGACTTCTCCTTTGAAGAAAACCAAGATGGAGTCTGCTTCTGATAACATCATTCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021987:ENSDART00000144558:30
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=0.127
Domain overlap (PFAM):
C1:
NO
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:
ACTTCTGGAAGAAATTGAGAAAAACA
R:
GAATGATGTTATCAGAAGCAGACTCC
Band lengths:
182-1960
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]