DreINT0163192 @ danRer10
Intron Retention
Gene
ENSDARG00000078430 | tiam1a
Description
T-cell lymphoma invasion and metastasis 1a [Source:ZFIN;Acc:ZDB-GENE-080325-1]
Coordinates
chr10:25611056-25613442:-
Coord C1 exon
chr10:25613270-25613442
Coord A exon
chr10:25612980-25613269
Coord C2 exon
chr10:25611056-25612979
Length
290 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TTCTTTCTACTCATCCACAGTTT
3' ss Score
8.55
Exon sequences
Seq C1 exon
CTCTCCAGAGAGTAAAAAAGACTTCTTAAAGACTGTTCATTCCATCCTGAGGGACAAACAACGGCGCCAGCTTATGAAGACCGAAAGTTTACCTCCAAATCAGCAGTATATTCCCTTTGGAGGGAAGCGGCTTTGTGCGCTAAAGGGTTCACGACCCACCATGAACAGAGCTG
Seq A exon
GTAAGTTTGCGACGTCTCATGCAAACTGTAGGATTACTTTTCTCTTTAACACTTCCCTTTATTCCTCAAACTATCTCATCGTTTGGCTCTTCGCTTTTCAGTCTCTAACATGATTAATTGCGCAGTTTTTATCTCAGTCTTTAGGCTGAGCTGTTTATTATGTAACCCCCCCCCCAACCAAAAAAAAAATCCTAGTGTCCATCAGATATTGCTGCTTTCTTTCCTAAAGGACAAAACTGTCTACCGAATTGTAGTTAGCATTCACATCAGTTCTTTCTACTCATCCACAG
Seq C2 exon
TTTCAGCACCATCTCGAACCCTGGGTCAAAGGAAGCTGATTCGTAATCGTATCACCATAGACACAGGTGTTATTTTTGATGACGACTCATCCCAGGATCTATCACCAATCACCCCCACAGAACCCCCATTCCATAAACCCCAGCAGCCCATCCGGGACACCGACCGCTGGGTGGAGGATCAGTTTGACCTTCAGATCTACGAGAACCAGGACGACGTTAAAGAGACGGACATCCTCAGTGATGACGATGAGTACTGCCAGTCCGTCCGGGCCCCATCCTCTGACCCAAGCCTGGAGGAGTCCTTCGAGGCTCTTTCAGTGGAAGGAGATGAAGACAAGGGTCTCAACGGGCTCTCCGAGGACAAATCGAAGAAATCTCACGCCCCCTTGAAACTGACCCTTCTGAGAAAGCAATGCGCAGTGGAGGGTGTTTCTTCGGAGAGGGACTGTGAGGTTATTTGGGTTCGAAGAGACGATTTTAAAAACAGCTGCAACAGTGACATCTTCTGAGCGGAGAGGGAATATGCAAGCTGTAATGCTGTTATTTTTAGACTTGTGCCAGAATAAGGCAGACGCTTACTGAGTCCGAGCTTTCACGGACATGATGCACTGACAATCCTACTGAAAGAAAGCCAGAACTGAAGAGCTTCTTGATGTTTCAAGCCACTTGAAATATCAATGCAAGATCAAGCTGAGGGACATTCGAAGATGCCAACTGTACAGCTCATGTATTTATAGAGGCTTCATACTGACAGACATCAGGCAGCTACGTGTTCATTTAGCTGATGTTTTTGGTTGGAACACAAAATGGTGGTCAGTTTGTTTGCTCGTGCTTCATATCTTCCTTTTTATTCAGGGATTTGTGACTTAATGCCTCGTATATTGTTCTTCGTAATGGCTACAACCCGGAGGGCACCCATGCCAAAATTGCAAATCCATTTGATGTCAATCCACTACCTTGATGTCAAATTGACATCTAACATTGGTGTCAAAAAACACATCCGGTATTACAGTCCTGTAATCGATTTTTGATGTGTTTTTTAATGCTTAAACGTTGTCGTTTGAACATCAAGGTAGCTTACATGCAATGTAGAAAAACAGAATCATACATTTGTAGTTGAAGCCTTCAAATGAGTAACATATTTCATATAGTTTCATATTTTTTGTGTCGTTATTTTGGTGGTCGAAATTTCATCAATGTATTGACGTCAAGGTCTTGACATCAAATTGATTTGCATTTTGATGTGTTTTTTGGATGTTGCTTTACATCAAGGTGCCCGCCAAAAAGGGGGTGATTTTCATGGAGCACGTCAACATTCCCTTGAAATGCCACGGCTAGTTTTGACCAGCTGTTTAATGCCGTTTCCTTTACATATCCAACCGTTCCCTGCTTGCTGTCTTCGTTCCCTTTTCTTCATAGGTCACCAGCAACCCAGTATTAAAGATCACTGTTCATCCAACACACAGAGAAATATTATTCTACTTGAATTGTGAAGAAAGAACTGCAATAATGTAACTCGTTATTTCGAAAAGGATATCAAACTACCCATGATCCTTTCTCTAGGGGCTTTGGTGTGCTTAGGCACATAAATAAGGCATTATAACTCAAAGCACCCCTGCTAAGTGATAAATGTAGCAGATTTTGTCTTGCTAAGAATGAGATTTGATTTTTATGGTATTTTGTACACTGGTAAAGATAAAGCTGGACATGTTACTCACTCCAAGTGTATTTTAAACACCAGAAACGCCCTTCCATGTGAAATACAATCACTGCACCTTCAGCCATGGTTTCCTTTTAGTGAAATTGACTGTATTTAAAAACGAAAACTGTAAAAATGCCATACTTTTATCCTCTGCCTTTTTGAAACTGTGTATGTTCATACTGTGGAAATACTTATTAACCTTAAATAAATCTTCCTAATTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078430:ENSDART00000143978:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.373 A=NA C2=0.473
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:
CGCCAGCTTATGAAGACCGAA
R:
CAAACTGATCCTCCACCCAGC
Band lengths:
295-585
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]