DreINT0180409 @ danRer10
Intron Retention
Gene
ENSDARG00000016301 | zgc:65894
Description
zgc:65894 [Source:ZFIN;Acc:ZDB-GENE-030131-7741]
Coordinates
chr1:55548092-55551427:-
Coord C1 exon
chr1:55551317-55551427
Coord A exon
chr1:55549306-55551316
Coord C2 exon
chr1:55548092-55549305
Length
2011 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAAT
5' ss Score
4.94
3' ss Seq
ATATTGTGTCGTCCTCGTAGGCC
3' ss Score
9.46
Exon sequences
Seq C1 exon
GTGGAAAGTATGTCCCTCGTGCCATCCTTGTGGATCTAGAGCCTGGAACCATGGATTCAGTCCGCTCGGGTCCTTTTGGACAGATATTCAGACCTGACAACTTTGTTTTTG
Seq A exon
GTAAATAAACACACTATACTTTAAACCAGCAGTCACCAATCTCGGTCCTGGAGGGCCGGCGTTTCTGCAGAGTTTGGCTACAACTAGCCTCAACACACCTGCCTGGGTGTTTCAAGTATACCTAGTAAGACCTTGATTAGCTTGTTCGGGTGTGTTTGATTAGGGTTGGAGCTAAAATCTGCAGGACACCGGATCTTCAGGAACAAGTTTGGTGACCACTGCTTTAAACTGATGACATGCATTAATGTTTGTTTGGTTAGCTAGAATGCAGTGCAATTGTACAGATAAATGAAATAAGTGCAGAGATATATTCATGGTGAGGTGAAGTTATTTAACCTGAAGGTTACTTATATTTTCTTACTCTCTACATACTGTACCACATACACCTTTTGTTCTTCTGGTCAAGTTAATTGGGTCTAGTCTTGTCTTGCATGCCTAAATATTTATGTTCTGTGTACTACATGAGAAAGAAAGAAACAAATTAAGGTTTTGAACAACATAGATTTAGTAAACAATGACCAAATTTCCATTTTTAGGTTGACTATCTATTGAATATCTAGTGATTTCTAAAGATGAAAATTCAACCAAGTCCAACCACAAATCATAGACTCCCAGTGACCTTGAAAACCTTGAATAATGTTATGCATAATGTTATTATTTAAAATGTATAAACGATGATATAATTGACAGAAAAACTCATCTGGGATATATTTTATATCATATTTTATATCTTTTAGCAAAGACTAAGCTTGAGGAAAAATTTGATGAGTGCATGTATAGCCTTTTTATGGCATGTATGTATGTAGGGACGCACCGATATGGATTTTTGGACCAATATCGATAACCGATAACTTTAGATTTGGAAGCCGATAACTGATATATTAGCCGATAAAAATCTAAATATTTCGAAATGTTATCTTTTTATACAGTGAACAATAGACATTATTTAAAAAACTTCATAAAAGTTGAACAGATCTTAGAATAGCATACTCAAATTAATTTCTAAATCGCAAGGTGGTTATATAGACCTATATTCAGATAAATCAGCATAACAGAAATATATTATTTCCTTTTCTTTGCATAGCAAATTATCATACAACTGGATGTTTGCATGAAAATAATAGGTTAAATAACAAAATGAGAGGCAGGCACTTCTGTACCATGACCAACGCGATTTTACGTCAATTCGTAACTGTTTGATTTAGTGGCTAACTCGTATTAATTCGTACGATCTAATTTATACAATTTGTATGATTTGCTCATTACCCAATGACGCTTGTAGTTAGGGGTGGGGTTGGGTGCCACGCCTCCTTTTTAAAATCATATATTTTTGCACGACTGAACTCTCTAAACTGACGAAACGTAAAATACTTACGTTTCCTCATGAGATCAGGCTGACAATGACATAATCTATAAGCTTAAAGATATCGACCTACTTTCGATATCAGACCGATAACGGTAACATTAAAAATAGCATTTATCGGCCGATACCGATATGGCTGCCGATATATTGTGCATCCCTAGTTGTATTGTATAAAGTAAAAATAAGTAAAAATAAGTACAAATACTATCAGACATACTGTGAAAATTTCCTTGCTCTGTTAAACAGTATTTAAAAAAAAAAGTAAAATAGAAAGGAAATTTCAAAGGGGGCTAATAATTCTGACTTCAACTATATATATTTTTATATATATATATATATATATATATATATATATATATATATATTGGACATTTGAATACAAAAATATTCTTTATGCAATATTCCAAAATGTTTTTAAAAATAGGTGGATGGAAACAAAGCGACTGACATCTGATTCATTAGAATGACCGTGTAGGAAAAAATGTACCTGTCATTAATCGTTACCTGAGCATTTTCAGTTCATCCTCACTAGTAAATGATCCAACCTGCTGAGATTTTAAACACTTCAAATATGCATTTCAGTTTCATCCTCACCATTTTGAATAGCATGTTCATGACTGGTTAATAGATATTGTGTCGTCCTCGTAG
Seq C2 exon
GCCAGAGCGGAGCTGGTAATAACTGGGCTAAAGGTCATTACACGGAGGGGGCTGAGCTGGTGGATTCAGTGATGGATGTGGTGCGCAAGGAAGCCGAGAGCTGCGACTGCCTGCAGGGTTTCCAGCTGACGCACTCTCTGGGTGGAGGAACGGGCTCTGGCATGGGAACGCTTCTCATCAGTAAGATCCGCGAGGAGTTTCCGGACCGCATCATGAACACCTTCAGTGTGGTGCCGTCTCCCAAAGTGTCCGATACGGTTGTGGAGCCCTACAACGCCACACTGTCCGTCCATCAGCTGGTGGAAAACACTGACGAAACGTATTGTATTGATAACGAGGCGCTTTATGACATCTGCTTCCGCACGCTCAAACTCACCACACCTACATACGGAGATCTCAACCATCTCGTCTCGGCCACCATGAGCGGCGTCACCACCTGTCTGAGGTTCCCCGGCCAGCTTAACGCTGATCTCCGCAAACTAGCCGTCAACATGGTGCCCTTCCCACGCCTGCACTTCTTCATGCCCGGATTTGCTCCTCTGACCAGCAGGGGGAGCCAGCAGTATCGAGTGCTCTCCGTCCCGGAGCTCACCCAGCAGATGTTTGACGCCAAAAACATGATGGCCGCTTGTGATCCACGCCATGGGCGCTACCTAACCGTGGCGGCTGTTTTCCGCGGTCGCATGTCCATGAAGGAAGTGGACGAGCAGATGCTGAACGTCCAGAATAAGAACAGCAGCTACTTTGTGGAGTGGATCCCGAATAACGTCAAGACGGCCGTCTGCGACATTCCACCTCGCGGGCTCAAAATGTCGGCGACCTTCATTGGAAACAGTACAGCCATCCAGGAGCTCTTCAAGCGAATTTCAGAGCAGTTCACGGCTATGTTTCGCCGCAAGGCCTTCTTGCATTGGTATACCGGTGAGGGAATGGATGAGATGGAGTTCACCGAGGCCGAGAGCAACATGAACGACCTGGTGTCCGAGTACCAGCAGTATCAGGACGCCACCGCCGAGGAGGGAGAGTTCGAGGAGGAGGGCGAAGAGGAGGCTGCGTGATCGCCATCGCTTACATTATTATATACACGAGTCTAGTTCTGTTAAACAGAGAAAGTCTATTTAAACTCTTGTGTGTGATTTTTTTTCTTTTAGCTCATTCCTTACTGTGTTAAAATGACTATGTATTTACTGAATAAATAAATACAACAGCAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016301:ENSDART00000019573:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.094
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.7=100)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=37.1),PF0395312=Tubulin_C=WD(100=34.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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]