DreINT0133575 @ danRer10
Intron Retention
Gene
ENSDARG00000022996 | setx
Description
senataxin [Source:ZFIN;Acc:ZDB-GENE-070402-1]
Coordinates
chr21:3787804-3791573:+
Coord C1 exon
chr21:3787804-3791331
Coord A exon
chr21:3791332-3791476
Coord C2 exon
chr21:3791477-3791573
Length
145 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGA
5' ss Score
4.3
3' ss Seq
ATCCATTGTGTTTTCAATAGATG
3' ss Score
7.86
Exon sequences
Seq C1 exon
GCACCTGGCTCATCCAACAGTGGTGTTGGCAGCAACTATGTGATTTATGACGATATGCAATCACTGGTCAGCGTGCTTAATTCAGAGATGGGCCAGAGCATGCGTGTATATGGATGCACTTTTCTGTGGTTCATCCCATTTGTTCGTTCCATAATGGAACTTCAAGAGCACAATGCTTCCTATATTAGTGAAATCATCCACTATCTTTGTGATAAGATCCGAGATAATCGGTACATGCTGACTGGACAAGCAAGCGTGTGTGATAAAGTGACTGAGCTCTTTGCTCGTATCTTTATTCAAATCGTTGAGCTACACTATACCGAAGGACAAATGGGAATACTTTCTCGCTGTCCCCCCAAGTGGGTTGAGGTGATTGTCATGTGCGTCGTCTTATGTGATGAACCTTATGGACCCCCAGACAGGATGGGTGGGATTCACAGTGTCAGTTCAACATCTTACAGTCTTGGCATTGTAGGAAGACCTACATCAGAATGTGGGAATGGAGCAATAATTAAAGGCTGTTTGACGCTTATTCGGCAGCTGCTTAAGGAAGGGAAAAGAAGATCTGACCCAGATGCGGCCATGTTTTTGAATTTGCTTAACAAGCAGCTGCGTGGTGATACCAACAAAAGGTGGAGTCTAACTTTTTCAAATTCTGCAAAGCTTCAGCAGTGTTTGAGGAAAATTGTGCAGCTGATGGCTGAAAGACCTGCTGTTCCACCCCGATCCGCACCATCTGTTGAGGCAGCTACAAATACTGTTGTTTCCAGAAATTCAGTATCAATCTGCCAACAACAAGAGGACCCGGAGGCAGGTCCCAGCAGAGCTGCGTTTATCAAAGAGGAGCCTCTTTGGAATTATGGAAAAAAATCTTTCTCCAATGAGGAATTCTCATGTGGGCCTGAGGATGTCTTCAAGGGTAAAAAGGAACCTTCTGACCCAGTGTTAATTTCAGAGCTGAGGCCTGCTGTTGAGTTGACCAATATAAAACCAGATCTGGGTAAACTGCAGGAAATTCGATCAAGATTAAATGATGATCAGAGTTTGTCAAAGATCGAAGCAATTGCAAGGAAGAAGTCTGACGTGTCAGCTAAAAAGAGACCAGGTTTTGGGGCTTTAAAAAATGAGGAGGAGGAGGAGGATGATGATGATGATGATGATGATGATGAACCCCTTCATATCACTCGAACTCGTCTGATAAAATCTGCAATCCACAAGCTTGAATCTAGTGACTCTGACGTTGACTCCAGAGCAACTGCGTCTTCGGTTATTTCCAAGCAGAACACAGAGTCCACTACCATAGTTATCTCTGATGATGAAGATTCTGATAATGATATAAGGCCAAATGACCCCTTGAGGTCTAGTTACAAAGAATGCACAGTAAAAAACAAATCTCCAGAAAGTCCTGTAATGCCTGAGAGTCCGGGGCGTGATTATGATGATCTAAGTGAATCACAAGTGTTTGAGTTTGAGACTCAGCAATATGTGGCATCTGCTTGGGATAATGCAGATTTGGATGGATCAGTCTTGACAAAGAATCTCAAATCAGATCGAATACTCAAGCCACAGTTGGATGAAACGCCTAATGAAGCATCTCCCTCATGGAGTTCAGAGACTGAGCTGGTACCAGATGAGGACATTGAGAGGGCCTGTCAGCAGGCAGAAGAGAAGATCAGACAACAGCAGCCGAGAAAGCCAGCAGATGAGATGGAAAGAGACTATAAGCAGGTGGAAGAGAAAATCAGACCACAGCAGACACGAGAGAATTCGGATGTGCATGAATTCTCATCCAAAGCATCAAGTACTACAAAAAGCTGGGATAAATTTGCCAAACCAAAACCTCTAAAGACTAAAGTAACAAAAACCACTCCATCTGATAAGAGAGACCATTTGCAGGTTAAAAAGCCAGTGTTAATTGATGCCCTTGCTCAAAAAATCAGACGCCACCCTTGGAAACGTAGCTCAACATCTGAGGACATGGAGGAACCTTCCTCTTCAACTACTCCATCCTCATCTGCTGTATCCTCCACCTCCTCCTCCTCCTCATCATCATCATCCACTCCATCCTCCAGCTCCATCACTTCTCCTTATTTTTCTGCATCTACGTCACGTGGCACCCCTGCCATTGTTCCTCCAAAGAAGGTGCGTAAAATTGCTGAGCCAGAATCAACGGCAGAGCGTTTAGGATTGAAAAAGAAGGAAAGGAAAGCCTTTGATCTTTCTCAGCGTTCACTTGACTGTGTCGCCAGACTCAGGTGCCATGGCCAGAACGTGCAGGTGGAGCCACATCAGAAAAGAAGGCGAGCGTCTCGAACCAGTAAGACTTCTCCGCAGAAACGTATGGTGAAAGCTAACAAGAAACTAATGGGATCTCAAGATATTCAGTTTTTCAGGCAAAGTCGTGAGAAGCATCAGAAGCCAGCAACAGAACCCATTACAACATCAGCTTCCAAACCAGTCAGTCGGCAAGATGAATTGCACTCATCGAGACCAACAATTCCAAACAATGAGGATGGTGACTTCTTGCCCTGTCCTCAACCAGATGCCCATTGTCAGCAGGATAATGAAAAAGGTGCATTAGGGAGTAGCGATTCTAGTGGGGATGGGGTAGGGAATAAGTTCCTCCAAGCTAGTGAGGCTGCTGAAGGTAACTTGGAAGGAGAGAAAGCTGCTCAAGCATCAAAAGAGGATGTTGATGATGAATGGATGTTCTATACACAGATGGAACCTACAGACATGGAAATCTGTTCACAAATGGAGGAATTTGAGGATGAAAACGACGAACTCTTTCTTACCCAGAGAGATCCTGTTGACATGGACATCGATACAGATAGTGGGTCGGATACCCCTGGTCAACCTGACTTCACTGACAAAAATGTACCGCCTTCTAATGCGGCAAATGATCATTTGTTCTTGAAGCCTGGAATGTCACCCATGTCTCAGAAAAAAGCCAAACCTTCCACCACTAAAATATACACTCCCAGCTCCCGTAGTGCCTCACTTGTCCTTGAAATGGAAAAAGGAGCCAAGCCTCCCCCTCCTGCAAATGTCGCTAAAGCAAAAATTCCTCGATTGGCTTCAGCAATGCCACCCCCAGCAATGCCACCACCAAAAATGCCACCCCCCAAAATGTTCCAGCCTTTACCCCCTCCACAATTACCAAAGCCACCTGCCTTAAAACAAGTAACTCTTCCTCAGGGCAGTGTCCCCAAGTTGGTCACCAGTAATAAAATAAGCTCAACCTCAGAACCCCCATCATACAAGGTATACCAAAGACCAGAGGCTCCAGTTAACAAGCCAGTTAACAAACCAATGCCCACAATGGATCAAAGCCCAAAGTTTGACCTTTCGGTGTTAACCCAGGCAATCCTTAAATGGGAATACAGAATGCTTGATAATTATAAAGCATTTGGGAGTCCACTTGATCTGTGCCAACTGCCGCTGAAGGAGGTGCCAGTAAATTTTTCTTCCTACCTGGAGTACTTCAACACCTTGTACCCACTGCTGCTAATTAATGCATTCGAAGAG
Seq A exon
GTGGGACTACATTTTATTTCAGTAATGCCTAAATCTTTTGATATAATTGGGACTGCATTTTTTTTAAATATAGATGATTTGTTTATTGGTGTTCTTTTTCAAGATCAGGAATTGGTTTAGTTTTAATCCATTGTGTTTTCAATAG
Seq C2 exon
ATGGCTAATGAATGGCTCAAAGAGGGAAGGGTCAAGCTGTACCTAAAAGTCCAAGGTATTGAATACAGCAATCGCACTGCTAGTGCTAGCTTCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022996:ENSDART00000149777:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.668 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF127262=SEN1_N=PD(25.2=9.7)
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:
CCCACAATGGATCAAAGCCCA
R:
ACAGCTTGACCCTTCCCTCTT
Band lengths:
253-398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]