RnoINT0138561 @ rn6
Intron Retention
Gene
ENSRNOG00000005957 | Slc4a7
Description
solute carrier family 4 member 7 [Source:RGD Symbol;Acc:621208]
Coordinates
chr15:11881742-11883471:-
Coord C1 exon
chr15:11883311-11883471
Coord A exon
chr15:11881931-11883310
Coord C2 exon
chr15:11881742-11881930
Length
1380 bp
Sequences
Splice sites
5' ss Seq
CAGGTTATG
5' ss Score
2.37
3' ss Seq
ATTTTTTTTTCATTGACTAGATA
3' ss Score
6.24
Exon sequences
Seq C1 exon
GTGGCTGAAGTTCGAAGAGGATGTTGAGGATGGTGGTGACCGATGGAGTAAACCGTATGTGGCCACTCTGTCTTTGCACAGTCTCTTTGAGCTGAGGAGTTGTATCCTAAATGGAACAGTCATGCTGGATATGAGAGCAAGCACTCTGGATGAAATAGCAG
Seq A exon
GTTATGCTAGAAACTGACTTTTTTAACACTTAATATAATTAAATAAAATTAGATGTTATTTAGGCTCAGGCTTAAGCTCATTTTCCCCCTTCCCCCAAAAAAGGGACAGGTTAAGGTCACTCTTGACTTACTGGCCTGAAACCTTGATTTTATGTGGGAAGCATGGTGATTAAGTTGGGAAAGGAGTGACTCTGACGTGCACTTTGGGAATATTCCTGGGTTACTCTGCAATGGGATGGTAATAGAAGCAAGAAGTCCAGCTATTTCTTTGGAGTTGTGTGAGGTAGTAAGGCTGGTATTAAATACAGCAGTGGGAACAAACAAGAGACTTGAAGGATTCTAAGGAGTTAGAGTTGGAAAAGTGGAAAAAGAGTTGTAATCATTTAATGACTTTTGTCTACAGTGGCTCAGTAACAACATCATGTTTGCTGTAAACCAAATACTATGTCGTCAGTGCAGATTGCTCCCACAGAAGAACAGCAGATTGAGTCTTTTGGTTTATTAAGAAACCCAAAAACTTAACTGTAATTTGTGAGCTATAAATCATTTGAATTTTATTAGTTAGATTTGACTGTGTTAGAGATCTTTGAATTGTTACATCCCATTTGTGTATGAATGACTAAAAAATTGAGTTAGAGTTATAGACAGATGAGTCCCTGTTTCATTTTATAGTTGTCACAATTAGAACTTTATTTTATTTCTAAAAAGGAATGTTGTTACTTAGTTTTTGAAATGTTCATACCTGTGGTGGATCAGAGGACCAGTGCTCACATAGCAGCTCACGGCTGTAACTCCAGTTCTAGGGGATAGGGCACGCCCTTCAAATTTCTGCAGACTCTGCAATCACAGGGTGCACATCCATATATTCCCAGGAGTAGGCGTGTGTACGTAAAATAAATACATTACTTTTAAACCTTTGTATGTATTTATACAGTGCATTGAGGATAGTGTCCTGACCATATTGGTTCCCAGAAGGGCATGGGCATCAGGCCTCTTGTTCTCCCACTCCTTTTATTCCCTGACAGAGTTTACTGTGTCAGGGATTTAGTCCTCATTGGTTCTGTGCTTCCGGCAGAGTGAGAGCTATCACTGCTGTCACTTCACTGCCCTGCTCCTAGCACAACAGACATTTGTAGATCTTTAGAAGCCTGGGCCATTGAATATTTAGCTAAGTAGAATTTACTATTTCTGTTTCATTTTTTTAATTAGAATTTGCTATGTCTATATAGGAAAGCAGCCTCTTTAAAATACATTACTTAGTAAAATAAGAGTCTCGTTTATTATTTCTTGTTGGATGGATAATGTTTGTATTCAGCTTTATGCATATGCTTTCATAGTGTTCATATAGAAAAAATAACTGATTTTTTTTTCATTGACTAG
Seq C2 exon
ATATGGTGTTAGACAACATGATAGCGTCTGGCCAGCTAGATGACTCCATAAGGGAGAATGTTCGAGAAGCTCTTCTGAAGAGACATCATCATCAAAATGAGAAAAGGTTTACAAGTCGGATTCCCCTCGTTCGATCCTTTGCAGATATAGGCAAGAAACATTCTGACCCTCACTTGCTTGAAAGGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005957:ENSRNOT00000008759:5
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=0.271
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PU(12.0=85.5)
A:
NA
C2:
PF075658=Band_3_cyto=FE(16.1=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:
GTGGCTGAAGTTCGAAGAGGA
R:
CCTTTCAAGCAAGTGAGGGTCA
Band lengths:
346-1726
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]