DreINT0161342 @ danRer10
Intron Retention
Gene
ENSDARG00000016835 | tcirg1a
Description
T-cell, immune regulator 1, ATPase, H+ transporting, lysosomal V0 subunit A3a [Source:ZFIN;Acc:ZDB-GENE-090311-31]
Coordinates
chr1:44175250-44176495:-
Coord C1 exon
chr1:44176403-44176495
Coord A exon
chr1:44175371-44176402
Coord C2 exon
chr1:44175250-44175370
Length
1032 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
ATGCTGATTGCTCTTTCCAGGAG
3' ss Score
7.5
Exon sequences
Seq C1 exon
CTACATGAGGAGCAGCGTTCTCTAGTCACAGACACCAGCTCAATAAATGCACAACTAGTTGACCTAGAGGGAGGAGGAGGAATAGATGAACAG
Seq A exon
GTAAGAAACATAAAATCAGTAGATCAATAATTGTACACTCATTCTTACCGGATGACCTAAAGGGCAATTACGGATTTTTCCGGGAAAAATAACAAAACGGGAGGGTGGCGGGAGATGGGTCTGAATTACGGTAGACTCCCGAGAAAAAACGGGAGTGTTGGCAGGTATGCTACAGTAAGAACTTTCCCAATGATTATTTGATGTATGTATTGGTGAGTTAATTCAAGCCTTTCTGCAACGATGAGACACACATAATGTTGCGTAAGCACGCACGCACACTCAGTTGTTGATAAGATTATACACGTTAATAAGATTATACACACAGACTTGTTCTAAGTTCTGTCAATCAATTCACTGGGCAGGAAAACCACACTTCTATGTCACGTTGCGGTGGGCCTCAAAATAGGAGGGATTTGAATCATATGTCAGGAAATGAAAAAGAAAAAAAAAAAAAGACTTATTGACTTTATATCACCCCAATGTGACTGTGGACACTATACCTACACACAGTTCTGTCCAAACAGCTTACAAAAGTTGATTTTCATCATAGGTGCCCTTTAAATCAGTAGATCAATAACCAAAGACTCTCTCTGATGTGAAAACTTAAGTCAGTGAATCATTAACTGGAGACTCTTTGATTGGATCATTTGAATCAGGGACACATTACTAGTGGAGAACTCTAAGGTGCTGGGCTGTTGATATTGTTATAATTTTAATATTTAACAATATTGTGATATTCAAAATTTTGGAGTCAAACAGGATAACAGTGGCCACAAGTGTCTCCACCATCTTTAAAAGTCCCTGTAGCCATCTTGACAGAAATCCCACTTCTGCTTTTATTTGATCGAGTGAAATAAGGACAAATGGCAGATTTAGTTCATCTGAATTTATACTATTTGCATTCAGTCTTATAGTAAATTCAATTCAAATGCAATACCTTCTCGAGTAGTAGGTTATTTTGGACACATCCACTGATCAGTCCAGTTCCTGAATGGATTCTTCAGTGCGAGTGATGCTGATTGCTCTTTCCAG
Seq C2 exon
GAGTTTGAGTGGACGGAGGTGTTCATGCAGCAGGCCATCCATACTATAGAGTACTGTCTGGGCTGCATCTCTAACACTGCCTCATACCTCCGCCTTTGGGCCCTCAGCCTCGCTCATGCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016835:ENSDART00000145354:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(3.8=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(5.1=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:
CTACATGAGGAGCAGCGTTCT
R:
GTGCATGAGCGAGGCTGAG
Band lengths:
214-1246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]