DreINT0109551 @ danRer10
Intron Retention
Gene
ENSDARG00000021140 | pabpc1b
Description
poly A binding protein, cytoplasmic 1 b [Source:ZFIN;Acc:ZDB-GENE-050308-1]
Coordinates
chr19:12207919-12210383:-
Coord C1 exon
chr19:12210273-12210383
Coord A exon
chr19:12208068-12210272
Coord C2 exon
chr19:12207919-12208067
Length
2205 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CATTTTCTGTTTTCTCTCAGCTA
3' ss Score
8.84
Exon sequences
Seq C1 exon
ACTTCCAGAACATGCCAGGCACGATGCGCCCCTCTGCCCCCAGACCCCAGACCTTCAGCACCATGCGACCAGCATCCCAGGTGCCCCGCATGATGTCCACTCAGCGTGTGG
Seq A exon
GTGAGTCATTTTAAAGCCATAGTACTCTTTAACTTATAATTGGTTGCTTAAGCTGAGCAGAGTTGAGCCTGGTCATTAGCTAAATGTGAGACCACCTGGAAAAACTTGGTTGCTTTTAGAGGTGGTGTTTGTGAAGCCAGCAGGGGGCGCTTACTTTGCTGTTAATTGTAGATCCTAATGCCCCACAATAGTTAGAGTAAAGAGTGGGGGTGTGAACCCGCTGCTAATTTTCCTCCATTTGGTCTTCACTATGAGACAAGTTTACATGGATATCAACCTTGGGTTGTGATCTGTACTGAATACGGATCAACCATGATCTGTTTGTTTCCATGTGAACTTACTCAGTGTCCTAAGCATCCCCATTATCTGAAGTGGCTCTATCACTGAGAGAGACCCTCTCATAAATTTGGAAAGTGCTTTAGATGTATGGCAATACACATTAAAAGTGCTATATAAAGTACACTTGCCTTTCACGCACGCACATACAGTGTCTGAGTGATATTGTTAAATCTGTAAATTGTAATTAAGTAAGCTCATTCCCTCATTATAGAAAGTCAAATTTCAGCTAATGCCTAGTTCACACTAAAGGATTTTAAGCCTGATTTGAGCCCGATTTGGAAGCTCGCCGACAGATCGGGCTGTGATCGGGAAGAAATCTGCGGGTGATCGGCGCTCGCCGCTCTTTATGTGTGAACTACTCAACAACGCATCAACGAGGCTCGCTGACGCGTCGCCGACACCTCGCAGACGGAAATCCAACATTCAGCATGCTAAATATTCCAGAGCAGTCGGCCGACTCAACCCCACGTGTGGTCAGATGTAATGACGAGCTGCAGCCAATGAGAGAGCATATCAGCATGAGCTGAATGCCTGTGTGTTCAGGAGCTCAGCAGAAACATCTGTGATTGGTCAGAATGGGCATCGGTGCACTCGCTTCATTCTGCGTCAGCACAGACATGAGAGTAGGCTATATTAACAGTGGAACTAGAATTCTGTAACTATTAGAATTACCATACTGCTCATTCTGACCGTTCTCATATGAAACGCCATATTGTCACAACATATTTACATTCAAAGCTATTATTGAGATATTAAAATTAAGCTTTGAATGTTTGGCATCATATTTAATGACACCATTACCCTAAAAATATAATCTTTTTTTTTGGTAATACAGCCTATAAATATGTAGTTAAAATACAAAACACTTAAAGGTCTTGGCTTTCATTTTCACTTTCAAACAGGAGCTATTTCACAGCACAAAATATGCTGTTTTGAAAGATATCTGAAGTAAATTGATGTTTTTGCCATCAGAACGTTTTTTTTATGTTAGCAGGAAGTTGCCAGGCAAGAAAATGCACACATATTTAAAGTCACAGCGAAAAGTATCAGACATGCATGCAGTCATTTTGACCAATTTGGTAATTTAAGGCAGAAATGCTCAGTTCTTTACTGTTTTGTAATAAAAAAATAACAATGTCAGAAAGAAATACAGATAGTTAGAAAACGGCAGGGTGTTATAAATATGTTAGTTTTATTTCAATTAGTCATACAATTACAAAAATTAAAAACTCTCTGTGTATCTATCCGCTCGAACCTTGCAGATGAGTGATTAATCCGCTGATAAATCAGCTGATTTGACGATGTTTTTAAATGCTTTCTCCAAAGCTTGAAACGCTGTCAGTGATGTAATCAGCACACAAGCAGCCAATAGCCTTCAGCTTTTTCTGACGACTCCTTCCTCAAAATTTCATTGGCTGTGGTTTGGTAGCTTGAATGAGCTCATGGGGAATGAGTTGTTGTCAGATCATGTAGTGTGTGACCCCCCCTTGTGGATCATTCACAGAGTGTTGCGTAGTGTGAACACCACAGAGATTAAAAGACACAAAGTCAAGTCATGTAGTGTGAACAGCACAGCGATCTGCTGATGTTTAAAATCCTGTAGTGTGAACTAGGCTTTAGGTGATCAAAAATGTAACCCCCCCCTCCCCCCCCCCCCCCCCCCCCCCCACACACACATTCCTTCTCCCCCCAAACTAAATTCAGAATGTGTTATAATTGTTAAACCATTCCAGAGAGGATTGTAGAGATCAAGATATGGTCAAATAGTCTAACATCTCCAGCCACGAGTGCACTAATTTGCAACATTACTTGCTCATGTTCGCATGTCATCACTATGCAAAGATCACATTTTCTGTTTTCTCTCAG
Seq C2 exon
CTACTCAGACCATGGGTCCTCGTCCTTCCACTGCAGCCGCTGCAGCTTCTGCTCCACCAGTGCGTGGCGTGCCTCAGTACAAATACGCCCCCAGTGTCCGCAACCCCCAGCAGCACATGAACACACAGCCTCAGGTTACCATGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000021140:ENSDART00000032474:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.990
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:
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]