RnoINT0137303 @ rn6
Intron Retention
Gene
ENSRNOG00000014369 | Slc27a4
Description
solute carrier family 27 member 4 [Source:RGD Symbol;Acc:1307383]
Coordinates
chr3:8368698-8370461:+
Coord C1 exon
chr3:8368698-8368856
Coord A exon
chr3:8368857-8370391
Coord C2 exon
chr3:8370392-8370461
Length
1535 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
TACATGTCTGTTTCCTTCAGATA
3' ss Score
9.98
Exon sequences
Seq C1 exon
CTGTCTATGAGATCCAGGCTATCCTGGACCCCACACTCACCCTCTTCTGCTCTGGTTCCTGGGAGCCCAGCACCGTGCCTGCCAACACAGAGCATCTGGACCCTCTGCTGGAAGATGCCCCGAAGCACCTGCCCAGCATCCCAGACAAGGGTTTTACAG
Seq A exon
GTGGGCCTCACTGTACACTGGAGGGTTCTGAAGTGTTCCAGAACACAGTGCTGGCCTCAGGGCTGCAAACTTGCCATGGGCCTCGAACAGGTTGAGGCACTTCCCTTTTTCCACCTGGAAAATGGGGCGGGGAAGGTGAAATTGTCGATTTGTAGAGTAGCCCATGGTAATGGCTTATGTGTGGGACTGTGTGTACCCTGCAACTTGCTTTGAGTCTTAGCCAGGTGGCGAGGAGGATAAGTGTGAGACCCTCAGCGTATCCTCCCAGCTTGTTGAGTGTAGGCTCTGCCAGGTCGAGCCTTTGCCCTCTCCTCCAGGAAACCCTCCTGGAGTCTTCCTCTACTGGAGCCTGATAGCCCTTCAGCTGCTGCTCTATTGCCTGGTGGCTACTGAGCCCCATCTGACTTCTGGTCTGGTCTGCTACTTCCTGGTGTGATCAGAGCCACCGACCTGCCCTCTGAGCCTCAGGTCCCGCTGCAATAAAGTTAGGGAGAGTAGCAATCGACTTTATGGGCTTATCATAAAGGTCGACCCTGAGGCTAGGGTATCAGCAGGCGGGGCTGTTACTTGTTATTGCCAGTATGGAGCCTCTCCTTTCCCTCTTTTCCTACACGTTTCCAGAAGCCACCTGAGGGCAGGGACCATGGTTGGCTCCCCCTTACCCTCATACTACCCAGGGCTGGCACACAGCAGGTGCCAGTGCCTGAGGTTCCTGCTGGCAGTGCCGTCCAGCATAGTTCCTGACCTGAGAAACTCACAGCTACTGTGACACGGGGCTTGGTCCTTGGTGACAGTGCCGCCTTGGTGGGTAATGCACACCAGTGGTGTGGAGCGGCTGTAGTGCCTGCTTCTTTTATTCTTTTCTCCTGTTGTTTGAGACAGGGTCTCTGTGTGGCCCTGGCTGTCCTGAAACTCAGTCTGTAGTCCAGGCTGGCCTTGAACTCACAGAGATCCATGCCTCTGCTGGGATTCTCCTGGGTGCTGTGGTTGAAGGCCACCATGCTCTGCCTTCGTTCTTTTTGTTCTAAGATGGCATCTGTCTATGTAGTTCTCAGTGTCCTTTAGCTTGCTGTGTCTCAAACTTAGGGGACCCTCCTGTCTCTGCCTCCCGAGCACTAAAGTTATACACCGCCGTGCTCAGCTAACACTCCCCTGTACCTAAGCCTGGAAGCAGGCATCTGCTCCTTCTAGAAGCCCTCCTGACACCACCCTGGCTCCTATAAGCAGAGCCAGTGGGTACTTAGCTGTCATCCGTCCTGCGTTCCCGTGGTTAGGCTTGGTGTTGAAGTGTTTGCCTTCATATGACTGTTCCACTCAGCTGGGACCTCAGAGGGGCCGTCTCTGTCCATCTCAACCACTGCTCTTTCGCTCCGCCTGGCTCTGCGTGAGCCTGGAGGGGTAGGTGCTGTTGACATCATCAGTAGGTCTCCTGGAAGAAGGACAGAAATAGGCTGAGGGGCATGCACTGCCCATCTCCCCACACGGTCCTGCAGCCGCTCTCCCGGTGACCCGCACTACATGTCTGTTTCCTTCAG
Seq C2 exon
ATAAGCTCTTCTATATCTACACGTCGGGCACCACGGGGCTACCCAAAGCTGCCATTGTGGTGCACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014369:ENSRNOT00000019500:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(12.2=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(10.3=100)
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:
CTGTCTATGAGATCCAGGCTATCCT
R:
GCACCACAATGGCAGCTTTG
Band lengths:
222-1757
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]