RnoINT0137624 @ rn6
Intron Retention
Gene
ENSRNOG00000010451 | Slc34a3
Description
solute carrier family 34 member 3 [Source:RGD Symbol;Acc:708551]
Coordinates
chr3:2448393-2450168:-
Coord C1 exon
chr3:2450044-2450168
Coord A exon
chr3:2449014-2450043
Coord C2 exon
chr3:2448393-2449013
Length
1030 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
TCACCCTTCCGGCCTTCCAGGTT
3' ss Score
10.23
Exon sequences
Seq C1 exon
GGGTTGGGGTGATCAACCTGGAACGGGCCTACCCCCTCTTCCTGGGCTCCAACATTGGCACCACCACCACAGCCTTACTGGCTGCCCTGGCCAGCCCTGCAGACACGTTACTCTTCGCAGTTCAG
Seq A exon
GTACTGGCCTCAACCATTTCCCTGTTCACAGTGCAGTCCAGGCTGGTTACCTATCCAGCTCTCCTTGGGCTCCTCAAACTCTGACCACAGGCCGCAGCTCCCCCTCTCAGACCCAGGGGGACATTGCAGGGACCACACAGCCCGAACCTTAGCTCTTCCTTTCCAGGAATGACCCGTGGTCATCTCATGCCCTTTGTCCCTCTAACACTGGCAGCCCCCCAGATCCCCCTGCAGGACCCCTGCTCCTCCAACCCCTTCACTGTGTCCCCCTGGGGTATCCAAGTGTGATTGTTTGATGCACGCCTGCCATGTGACTCTTGCGAAATTCCTGCTCCTCCATATACCATCCTCCTGTCTTCCCAGACGTCCTGGGATGCTCGACTGTGCTAGCTTCATCATGCCTCCTGAGCTGAGACACGGGTTCTGCCTCTACGTTGTCTCTTCCTAACCCCAAATCTCCGAGCTCTGTGCCTTAATCCTATCTCTGTGCCTTAATCCTATCGGAGCTCAGAGTCTCTAAATCACCCAGTCTTTGGTGCACTGCCCTGACTCTCGATTCCCTCTGCCAGGACAGGATAAGGTTCTGAAACCTTGGGTAGCACTGGCTGCATCTGCATCACCCGCTCACATCTTTGTATCCACCTCTGTATCACCTTTGTCACTCAGACCCTCCCAAGCCTGCACCACCCCCTCCCAGCCCTCTAGATTGTGCTCATTCACAGAAAGGCCGTGTGTTGTGTTCCCTGCCAGCCTCCCATTGTCTCTGATAGCAGCAGGGATGTGTTAGCACACAGGTGCTGGCCTCTGGCTCCTAAAATGTGGGGGAGGGGAAATAATGGTGACTAGGAGCCTACTCTGGCTGGACTCTGCTGTCCTAAGTGGTCTGTCTGAACCACTCAGCAGGACACAGCAAAAAAGCTTCAGACTTGACCAGAGTAAGAAAAGACATGGTTTCTAAAGATCCCAGAGCCCAGGTGACTTATGTCATCCAGTCCAAGCTCCTCAGCCCCTCACCCTTCCGGCCTTCCAG
Seq C2 exon
GTTGCTCTCATCCACTTCTTTTTCAACCTGGCTGGCATACTGCTGTGGTACCTGGTGCCTGTCTTGAGACTGCCAATTCCATTGGCCAAGCGCTTTGGGGACCTGACTGCACAATACCGCTGGGTAGCCATTGTCTACTTACTACTCACCTTCCTTCTGCTACCCCTAGCAGCCTTTGGACTTTCCCTGGCTGGGGGTTCAGTGCTGGCTGCAGTGGGGGGTCCTCTGGTGGGGCTGGTACTCCTTATCATCCTGGTTAATGTCCTGCAACGACACCGACCATCTTGGTTGCCTCGCCGTCTTCAATCCTGGGCCTGGCTGCCACTTTGGCTCCATTCTCTGGAGCCCTGGGACCGCCTGGTGACTGGTTGTTGCCCCTTCAAGGCCTACAGCAACTCCCATATGACCAGCAAAGTGGCTCACTGCTATGAGAACCCACAAGTCATAGCTTCTCAGCAGTTGTGAGAAGTGGGTGCCCATCAAAACCCAGTTCCACTAGCTTCGGGGCATTGGAGGCAGGAGAAACCACTGGCCAATCTTCCCTGGGGCTGAGTGGCAGGGCTCCACATGGATGTTTTAGTCTCTGCATCCTCTCCTTTTCAAATAAACGAGGTTACTATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010451:ENSRNOT00000014060:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0269010=Na_Pi_cotrans=FE(29.9=100)
A:
NA
C2:
PF0269010=Na_Pi_cotrans=PD(20.4=18.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCACCACCACAGCCTTACT
R:
CGGTGTCGTTGCAGGACATTA
Band lengths:
344-1374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]