RnoINT0138557 @ rn6
Intron Retention
Gene
ENSRNOG00000005957 | Slc4a7
Description
solute carrier family 4 member 7 [Source:RGD Symbol;Acc:621208]
Coordinates
chr15:11838452-11840617:-
Coord C1 exon
chr15:11840520-11840617
Coord A exon
chr15:11838560-11840519
Coord C2 exon
chr15:11838452-11838559
Length
1960 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
AAAGTGTATTTGTTCTTCAGTAT
3' ss Score
4.74
Exon sequences
Seq C1 exon
GAAGCTGAGCGGATGCTTCAGGGTGACGGGGATACTGTGCACCTCCCATTCGAAAGGGGGAGTCTCCTACAAATTCCAGTTAAGACCCTAAAATATAG
Seq A exon
GTAAGATACAACTTTACTTTGTATGCTGTGTTTTTCACACGTGTCAAGTGTACAGGTAAGGCATGTGATATTTCTTTGAAATAATGGTGAATAAATGTTTCTGCAGGGTAAGCACAGTGGCAGGTTAGAAGGCTGGCCATTGAACATTTGATTGATTGGGTAAAAGCCTGGTAACAGTTCCAAGGCTTTGTCTTTATTTTGTGATACTACGCTGCAGTCTTAATGGTGTTTGTTTGTTTGGGCAAGATCTTACAGTTTAGCCATGGTTTACCTGGACCTCACTGTGTAGACTAGCGTGTCCTCCACAGAGATCCCTCGGCCTCTACCTCAGAACGCTGGGATTGAAAGTATGTACCATCATGCCCAGCTGCAGTCTTACCTTAAACATTATGATGTATGAACAGAGGTGGAAGGTTTTTAAGCATTAGTAAAGTATTTGTCGCTTATAATTGGGATTACACTGTGATTTTAATGTGATCTAATTTCTTCTTTTTGTAGTACTTGGTATTGAACCTAGGACTGTGTGTGCTTGGCAAGCCCTACTGAGCTACTTCCCTACGCTTTACAATCTGGGTCGCCATTGCTATGATCAAACACAATGACTAAAAGCAACTTGGGGAGGGAAGGATTTACTTTTCCTTGCTTTTCTTTATCACTGTTTAAGCAATCAGGTCAGGAGTTGATTCAGAAGTCATGAAAGATTTTGGCTTACTGGCTTGTTCTCCTCATAACTTACTCAGTAATAGAGCACCTAAGACTACTATCCAGGGATGGCACCACCACTACCACATGTGTTCTTCCCTATCACTAATTAAGAAAACGCCTTTCAGGCTTGCCTACAGCCTGATATGGAGGTACAGTCTCAGTTGAAGTTTTCTCCTCTTAAATGACCCCACTTTATCAAGTTTTCATAAACTAGCCAGCCCACCAACCCACATGCTGTTGTTTGTTCTTAGACAGGAACTTACTGAGTTGCCCACTGCCCTTGGACTTACCGTGGCCAGCTGCTTCAGCCTCTGCCTCCTGGTAGCTGTAGCTGCGTGCTCGCACTGCCCGTCTCATTAATATGCTCTAGTGTGACATGTGTCATAGCTTGTTTGCGTGAATTGTTTTTCTTTTTGTAAAGAAAAGGGACTTTATCTGTGGAATATTCATATTACTTGTGACCAGTAACATTAAGCACATGTTATTTATGGGTATAATCATTGCATTGGGGGTCTGGCATCATTTTGCAGTATTTCATAGAAATGTTGAAAGGTTATATTTGACTTTTATAGTAAATTCTTTGATTTTGATACATCTGATGAAATAACACTTGGACACTAAAACTGCGGGAATATCTAGTTAAAAGTTAGTGGGGTCATTTTGTTGTTGTTGTTGTTGTTGTTGCCAAATTACTACTTTCAGAGCTTAATTTTCAGTTTGTGTGTGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGTGTGCGCGCGCGCGCGTGCGTGCGTGCATTTTCTTCCAGCATTTAAAAAAATGATTTGTAAAAGAAAGGAGCTTTTTTTTGCTTATATACTGTGAATTTTTACTTGATGAGAGTGTCAGTTGTAAGAGTTTTGACTAAATTTCTCTTTTTTAGGCTTCTAAACTGGTTTTTATTTTACCTCAATGATACAGCCTAGAAGATTGGGTGTTGTGGCTGGAATACTGTTGATGAACTACATAAATCCAAACTGAATTTTGCTCACATAAGCAACTCTGCTTTGGGGTTTAAGGAACATGCATTTCTCTGTGAAGACTGGCTAGCAGAACTCTAGGTTTATGATAATTTGTTACACTTTAGTGTAGGTGCACGTCAAATGTTTTCTCAATTTTTAAATTGGTGAAAACAAGAAATTATTTGATGCTAATAAAAATGACAACATTAATGCTTTTGCAAGTGCTGGATACTAACCAAAAAGTGTATTTGTTCTTCAG
Seq C2 exon
TATTGACCCTTCAGTTGTTAACATATCAGATGAAATGGCCAAAACTGCCCAGTGGAAGGCACTTTCCATGAATACTGAGAATGCCAAAGTAACCAGACCTAACATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005957:ENSRNOT00000008759:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.174 A=NA C2=0.405
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGGATGCTTCAGGGTGAC
R:
CTCATGTTAGGTCTGGTTACTTTGG
Band lengths:
198-2158
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]