DreINT0161334 @ 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
chr1:44187974-44189988:-
Coord C1 exon
chr1:44189776-44189988
Coord A exon
chr1:44188125-44189775
Coord C2 exon
chr1:44187974-44188124
Length
1651 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
CATATCCTTCTGTATTTTAGAGA
3' ss Score
8.59
Exon sequences
Seq C1 exon
GTGCTGTCTCAGACGGAGCAGTATATGCAGCAGCTGCTGTCCCGCTGTGTGTGTCAGATGCCACAGTGGAAGATACGTGTGCAGAAGTGTAAAGCTGTGCAGATGGTCCTTAATCTGTGCAGCCCTTCAGTCACAGACAAGTGTCTGATTGCTGAGGCCTGGTGTCCCGTGGCCAAACTGCTTCTGCTCCAGAGCGCTCTGATGGAGGGAACG
Seq A exon
GTAAGAAATGGCTTTTTATTCACACAGAAGTCAAATGAGTTTATTTTAGAAATGCTTTTCTTTTGAAATCCCAGACCTTTTATGTAGCGTGTAATATAGCTGCTTGTAAACATAAAAGATCTGTTTTAAAGATCTTCCAGGTCCAAACTCGGTCCTGGAGGGCCAGTGTCCTGCATATTTTAGTTTCAACCCCAATTAAACACATCTCAACCAGCTAATCAAGCTCTTCGTAGGTATACTAGAAACCTCAAGGCATGTGCGTTGAAGCTAAACTCTGCAGGATAACGGCTTTCCAGGACCGAGTTTGGACACCCCTGATCTAAGTGAATGATAGATAGAGTTGTTAGACAATTAAATTCTTGCTTCTTATTGGTAACAAATCTGTAAAATGCCCGCCTGTGGTCTTCATTGGCTGCCTATGAGCACTGTAGTTGTACTTGAGGCCTGGAAAAGTTTGGTTCTTTTGTCAAAATGTTGTTTTTTTCTGCTTTATGAAAGCAAATCTACTTTAAATTCATATCCAGGTTGATTCTGTCATTACTGTTTACATCCCTATGTTTAAATGGTATTAATAGTCTCATTTATTTATAATGTGCTGTATATGGTGGACTAATCACAACAGACTGGGCCAATCAGTTATCAGGGTGTGGGAAAATATTGATATAGCATAATATAGCCATTTCTTTTCATGAAAATACTTTATCAATACAAGGGTGACCATCTCAATATATGGCCAATATTTTTAATTGAATAACAAAACATGTTTCTTTACAGTCCTGTAGATGATGGCCTCAGAAAGGTGCATTTACCATTTATTACAGGATTTCTTTCATGTGCTGATCAGTTAGTTTGCTTGAGAGTCCCATTTTGCACTGCAGTAATAAAACTTTGCCCAAGATTTCCTTTGTGGACATAATTGGAAGTTGGAAAAAGGTTACAAGTTCATAATAAAATAGCAATAATATTGTATTGTGACATGTATTGTTCGTGGTAATATCATGTTGTGGGTTCGTATCGTATCCCCAGCCCTGATCAGAGAAGATTATCCTCTAGGTGAGTTTAGGGTCACTGAACAAAATTGAAAATTCTGAGAGAAGGTAAATGTTTTTTTATTATTTTAGATAAATGCAAACCTACAGAAAACCACCAAAACTAATTTAGAAACCTTTAGAGTAGCATAATACAGCAATATAGTTATGCAGCATACATTTTTAGATGCCCAAATAATAATTAAAACTCTTATATACTAATGTAAAGCCTTAGTTTAGTATTCGTATTTACTAATGTAAAACTAAATAAATGAATCATAATGGTGGCAACAGTGGCTCGGTTGTTAGCACTGTCACCTCACAGCAGGAAGGTTGCAGGATCGAATCCCGGGTGGCCCAGTTGGCATTTCTGTGTGGAGTTTGCAAAACAAAACTAGAGTAATTTTGTGGAGTAAACAAAATTGGTCTTAGTGTGTGTGAATGTTAGAGTTTAAGGGTGTTTCCCAATAATGGGTTGCGGCTGGAAGGGCATCCACTGCGTAAAACATGTGCCGGAATAGTTGGTGCTTCATTCCGCTGTGACGACCTCTGATAAATAAGTGACGAAGCCTAAGGAAAAATAATAAATGAATCTCATAACATCATATCCTTCTGTATTTTAG
Seq C2 exon
AGAAAGAGCGGTAGCAGTGTCGATTCTTTCTACAACCGTTTACCAGCACCCACATCTCCTCCAACACTCTTTGAAACCAACGCTTTCACTTCCAGCTTCCAAAACATTGTGGATGCTTACGGTGTAGCCAGTTACAGAGAAGTTAATCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016835:ENSDART00000145354:10
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(8.8=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(6.3=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:
GCTGTCTCAGACGGAGCAGTA
R:
CTGGCTACACCGTAAGCATCC
Band lengths:
342-1993
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]