RnoINT0022645 @ rn6
Intron Retention
Gene
ENSRNOG00000006523 | Atl2
Description
atlastin GTPase 2 [Source:RGD Symbol;Acc:1305125]
Coordinates
chr6:2605527-2607022:+
Coord C1 exon
chr6:2605527-2605598
Coord A exon
chr6:2605599-2606590
Coord C2 exon
chr6:2606591-2607022
Length
992 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
CTGTAATTTGGCTTATACAGGTA
3' ss Score
7.02
Exon sequences
Seq C1 exon
GCAACAGCTGAGGCTAATAACCTGGCAGCAGTAGCGGGAGCAAGGGATGCCTACTGTAGAAGTATGGAGCAG
Seq A exon
GTTTGTAACCAGTGTCTCCAGGCTCTGTGCTACTTACTTACTTACATTCTCACTTACATTTAAAGTAGTGGGACTGATTTGCACTTTACATATTGTCATGCTACATTATTCTGTAATTGTCTTTTTATGGTTTCTGCTGGAATAGATTGTTAGTTCCATGGCTAGCATGTAGGGTATGTTTTCTGACTTTTAATTAAGAATTTTCAGCCTGGGATGGATGTAATAGTAGCTTGAGACCAGTAGCAATCTCTGCACTAAGTGCTCCTCTTTGAAGCACTGTGTTACGTGTCCTTTAATCTGTCCCTTTGCTTAGTAATCTGTTGTGCTGCTTTTGTTTCCTAGTGGGTGGAGACCAGTCAGAGAGGGTGGTGTAAAAGCTGCGTTTTCACTGTTGGTGGTTTAGTCACACTTGGAGAGTTACTTGATTGACACGGTGTCTTATAGTTCCTATTGTTGCAATGAAACACCATGAGCAAAAGCAAGTTGGGGAGGGAAGGGTTTATTTGGCTTACACTTCCACATTGCTGTTCATCACTGAAGGAAGTCAAGACAGGAACTCAAGCAGGGCAGGAACCTGGTGGCAGGAGCTGATGCAGAGGCCATGGAGGGATGCTGTTTACTGGCTTGCTCGCCATGGCTTGTTCAGCTTGCTTTCTTATAGAACCCAGGACCACCAGCCCAGGGATGGCCGGCACCACCCACAATGGGCTGGGCCCTCCCTCACTGATCACTAAGAAAATGCCCAACAGCCTGATGTTATAGAGGCAGCTTCTCTCTTGAGGCTCCCTCCTTTCTGATAGTTCTGGATTGTGTGTCAAGTGACACAAGACCAGCCAGCACAGACCGTTAATGTGATCACTTACGAGTTATGTTCCAGTTTAAAGCAGCTATGTTAAGTGGTTTAATTTCATGCGACTAAAGTCTTTCAGCAGGGAACCTCTTCAGGTATTGCTAGTAGCGTGTCCTCTCTCACTGTAATTTGGCTTATACAG
Seq C2 exon
GTATGTGGTGGCGACAAGCCGTACATTGCACCTTCAGATTTGGAGCGAAAACACCTGGATCTCAAGGAAGTGGCGCTCAAACAGTTTCGTTCTGTGAAAAAAATGGGTGGTGATGAATTCTGCCGCCGTTATCAGGACCAGCTTGAAGCTGAAATCGAAGAAACCTATGCAAATTTCATAAAGCACAATGATGGCAAAAACATCTTCTATGCTGCTCGCACCCCCGCCACACTGTTCGCAGTCATGTTTGCTATGTACATAATCTCAGGACTGACCGGCTTCATCGGCCTGAACTCTATAGCTGTCTTATGCAACCTTGTCATGGGGCTGGCACTGACCTCCCTGTGTACGTGGGCATATGTTAAGTACTCTGGGGAGTTCAGAGAAATTGGAACAATGATTGATCAGGTTGCTGAAACACTATGGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006523:ENSRNOT00000008988:11
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:
PF028419=GBP_C=FE(17.6=100)
A:
NA
C2:
PF028419=GBP_C=PD(55.0=50.0)
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:
GGCTAATAACCTGGCAGCAGT
R:
AAGCCGGTCAGTCCTGAGATT
Band lengths:
342-1334
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]