DreINT0163181 @ danRer10
Intron Retention
Gene
ENSDARG00000078430 | tiam1a
Description
T-cell lymphoma invasion and metastasis 1a [Source:ZFIN;Acc:ZDB-GENE-080325-1]
Coordinates
chr10:25621417-25623609:-
Coord C1 exon
chr10:25623382-25623609
Coord A exon
chr10:25621486-25623381
Coord C2 exon
chr10:25621417-25621485
Length
1896 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
TTTCCACTGTCTCTCCACAGGAC
3' ss Score
14.52
Exon sequences
Seq C1 exon
AGTACAGAGCAGGTGACCGCCTTCTGCCGCAACCTTCATGATATGAATTCCAACGAGGGTCCCGTCTCCTGTTCCTCATCTTCCTCCACTTCTTCCTCATCTTCATCCTGCATGCCCAGCCCAATCTCTCCACTGCCTGGTCTTTTCACCCCTCGCCAGCTCTCTGACGCAGATAAACTCCGCAAGGTCATCAGTGAGCTGGTGGACACTGAGAGGACCTACGTTAAG
Seq A exon
GTTAGTATCATCTGTTTTTTTAAAGCCTTCTGTTTCTAATTTACCATGCTATGTTTGAACTTTTTTGTCAGTCCATCAGGGCTGCATAATATATCAACATTAACACTGCAATATGCAACATCTCATGATTTATGATGTCGAGTAGGAATCATAATTAACGAGGCACCACATTTTGGAACACGTGACTTGTGGTAGCTGCAAAGTTTAACCACAGCTGAGTGAAAGTTTGTCATTTGCTCATTTTTTAAACATCCCAAGCCATTTTAAAGCTTTTAGGCTCATTAAATGATCCTGTTTATAACTTTAATGAAAAAAATATGTATTTAACTTGTGCAGTGATTACTGTAAAGTGTTATTTTACAGTTTATTACTCAATTTCTTTTGCTAAATACTTCGCCCCAGAAAAACAAAATAATGTTTATTGTGTATCTTTGTTCTATTGTTTTTATCTGTACTCATATTTTGTTTATTTAATTTCATGTAGATGCACTACGCTACAAAATCACCCTAGTCACTACAAAATAATGCATTCTTCCAAAGAAAACTATTCAACTTATTATATACTATATATTATATAACTTAAACTTATTTACTATATAATAACTGCAGTAGTGGAAAGAGTACAAAAAAACTCATACTTAAGTAAAAGTACTATTGCCTAAAAATGTAGTACAAGTAGAGTATCTGTTGTAAATATTACTCAAAGTATGAGTAAAAAGTATTCCCTTCAAAAGTACTCAAGAGTAGTGAGTATTGCGCTGTAAAAAGCTGATGAATTACTTGTATTTGTGGATGTGTGTAAACGTAACATTCTGTTGTGATTTCCCAGCAGGCACACAATTTCTTAAGAAGTTATTAGGTTATATTTAGGGTGTGATGTCAGGTGACCAAAATTCAATGTCTAGCTAGTGTCTAAGTATTTAGGTTTTGTTTGAAAGTGTCCAAAATCCAATGTGGAGTCTACATCTTAAACCAACGTCATATTGTCGTCAAATACTGGCATTTATTCATCAGGTAAGGCAACCAAAATCCAACATCTGATAGACTTCATAGTGGTAACGTCCACACAACCTCAAGCTGTAACATCATTAAACTTTGAAATTTTGGTTGATTTTTAGGTTGGACGTTAAACATTAACATCGACCTGACCTTGGGTTCTGATGTCAACCCGATTTTTATTTCGAAACAAAGTGGTTAGGGTTTTTTTGACGTCAATCTGACATCATGTTGACATCTTGTGCCTGCTGGGTGTTTATGGCCATTCCGGTCATTAAAAAGTAAACATCCTTTATTTACACATCAGTGACATGCATCTAAACAGTCTCTAGGTCAATGCGTGCAAAGATTTTGGAAATCATCTCGGACACATTTAATTCTTCCAAACAATTTGCTCCAATTATAAATCACCCATGTTTTGATGTACTGTAGTTCATTAGGATGTGATTTACCTTCTATGTGCAATTTAATTGGACAGGAATCACAAGACACAATCCCCATAGACAAGAAAAAATAAAGTAGGGACTGCCGTTTAAAGGAAAATAGTGGAGTAAAAGTACCACTACTGCACTATAAATGCACTCAAAGAAAAGTAAAAGTAAACATTTTTAAAACTACTTAGTAAATTACAATCTTTGAGAAAAACTACTTAATTACACTTTGATTATTTGTAATTTGTTACTTTACACCACTGAATAACTATACCTTACAATATACGTACATAAATATTCAACTTAGTACTTTATATATCACAGAAAAAATATTACAGTGTCAGTTTGTTTTCAGTATTGTGTAGTCCTGATTTCCATACACAACAATAATACTTTGCTACTAAAACTATATTAATACTAAAACTACTGGATCAAAAAACTGTGCCTCTTTTCCACTGTCTCTCCACAG
Seq C2 exon
GACCTGAACATTTTAATAGAGCGCTACCTGAACCCCCTGCAGAAGGAGAGCTTCCTCACCCAGGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078430:ENSDART00000143978:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.342 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0391712=GSH_synth_ATP=FE(58.6=100),PF0062115=RhoGEF=PU(7.4=17.1)
A:
NA
C2:
PF0391712=GSH_synth_ATP=FE(17.2=100),PF0062115=RhoGEF=FE(12.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTACAGAGCAGGTGACCGC
R:
CCTGGGTGAGGAAGCTCTCC
Band lengths:
292-2188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]