RnoINT0075985 @ rn6
Intron Retention
Gene
ENSRNOG00000004276 | Itga3
Description
integrin subunit alpha 3 [Source:RGD Symbol;Acc:1310333]
Coordinates
chr10:82874238-82874923:-
Coord C1 exon
chr10:82874837-82874923
Coord A exon
chr10:82874446-82874836
Coord C2 exon
chr10:82874238-82874445
Length
391 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGC
5' ss Score
8.72
3' ss Seq
ACTTCCCCCCCTCATCCCAGGGT
3' ss Score
8.54
Exon sequences
Seq C1 exon
GAAACAGCTACATGATTCAGCGGAAAGACTGGGATTTATCTGAATACAGCTACAGGGGCTCAGAGGACCAGGGAAACCTCTATATTG
Seq A exon
GTAAGCCAATTAAGAGTTGGTGGCCCATTGCAGGATGGGAGAAACCACCTTGATGCCTAACACACTGGCCCTTTTACTCCTGGAGTGCTGTGGGGTGACCCTACAGTACAGATGTGACTAGAAGCATTTAGTTCAGTTAGCACACATTTATTGAGCACCACCTGCGTGGGGGACCCTGCACGTGGTTTAAGCTTTCAGATGCAAAGTCAGTTCTGTCACGAAGCTCAGTGAGCAAGGAAGAGTCTGACTGGATCCGTGGCCCACTGAATTACTCAACTTGGCCTAGAGGAATAGAGGATCAGAGAGGGTGGACAACAAGGAGGATGGGCTCAGTATAGAAGGGGACACATTTACTGGGGCTTTGGTTGAACACTTCCCCCCCTCATCCCAG
Seq C2 exon
GGTACACGATGCAGGTAGGCAGTGCCATCCTACATCCCTCGGAGATCACTCTTGTGACGGGTGCCCCACGGCACCAACATATGGGCGCTGTCTTCTTGCTGAAACAAGAGTCGGGTGGAGACCTGCAGAGGAGGCAGGTGCTGAAGGGCACGCAGGTGGGCGCTTATTTTGGCAGTGCCATTGCCCTGGCAGACCTGAACAATGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004276:ENSRNOT00000005644:5
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:
NO
A:
NA
C2:
PF135171=VCBS=PU(6.7=7.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACAGCTACATGATTCAGCGGA
R:
CCATCATTGTTCAGGTCTGCCA
Band lengths:
294-685
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]