RnoINT0138565 @ rn6
Intron Retention
Gene
ENSRNOG00000005957 | Slc4a7
Description
solute carrier family 4 member 7 [Source:RGD Symbol;Acc:621208]
Coordinates
chr15:11870891-11872516:-
Coord C1 exon
chr15:11872359-11872516
Coord A exon
chr15:11870979-11872358
Coord C2 exon
chr15:11870891-11870978
Length
1380 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAAA
5' ss Score
6.02
3' ss Seq
ATATTTTAATCTTTTCTTAGGTT
3' ss Score
8.96
Exon sequences
Seq C1 exon
GTTGACATGAATTTCATGAGGAAAATTCCTACAGGAGCTGAGGCATCCAATGTTTTGGTAGGAGAGGTGGATTTCTTGGAGAGACCTATCATTGCATTTGTGAGACTGGCTCCTGCAGTTCTCCTCTCAGGGTTGACTGAGGTCCCTGTGCCCACTAG
Seq A exon
GTAAAAAGCAGTTCATCTTCATGACTGTTCATGTGAATCCACTGGCTGGAACAATAGAAGCACTAAGAGATTGAGTTGATAATGTTTTCTCATTGACTGATTCAGTAAGATATTAAGAATTAATAGGAAATTGACAGAAATGTACCTATTTTATGCCTTTTTTAAATTTCATTTTCACTGATGATACAGTGTTGATAAATGAAGAGAATGATTTGATTACTTCATATGTCAATTTTCATAAAGCAGGAGGATGCATACTCAGATAAGAATATTAATATTTTACATAAGAATGAAGAAGTAATGATGAAACCCATTGTTTTATATGCTAGCATACAAAAACAGTTAAAATATTAACATCTGCTATTGTAGTGTTAACATGGATACAATTAAGTACTTTTATTTAATATTAAAAAGTAACAGGTTTGATGTTGAAGATAGAAATTATTTTTCCACTCAGAAAGGTTACTTGACTAAATGTCATATTTAGTGTTAAGGCTTTGATCCAGAAAAGTTTCAGAGTGCAGAATTTTTTTGTGTGTATATTCTGAACTATTTGATTTGACAGGTGCTTACTTTCAAGAAATCAGTGTGGGATAAGGGAGGTGGCTCAGCTGGCAGATTGCATAGTGTGCACGAAGCTCTGGGTTTGATTCCCAGCACTACATAAACTGGGTGTGGTCAGACACACCTGCAATCCTATCACTTGGGGCTGAAGGGGCAGTGGAGGCAGAGTTCATGGTTACCCCTGCCTACACAGTAAGCTTAGGTCTTTCTGGGATACGTGACTCTTTTCTCAAAGAGGAATTAGTGTGGAAACAGTGAGGTACTGCTAACTTGTAAGTCCAGCAAGCAAGAGGCTGACTGAAGAGTGTGATGTCAGCCTGGGTGACCTAGTCAGACCCATAAGATTGTTATAGCTTTGCTTGTTTTTGTCACTTCAGACCAGAGTTAGTTGTATAATCTAGAAGGATATAAAAGATAGAAATTTTTATGAAAAAACCCACTTCTTTAGTAACTGTTTTACACAAAGGAATCTGGGAAAGAAATAAATTATGAATGCCTTTTGCAGTTTCATGATCTGATTTTTGCTTATTTTGTTTTAGGCTTTGAAATAAGATTTCCTGTAGCCTCAGCTGAGGATGCCCTTTAACTCAGATCTTCTTTGCCTCTGCTTTCCAAGTGCTAGGATAGCAGGCTTGCCCACCACACTCAGTTAAGATCTGTTTTAAATAGAGTTAACATTATTCTATTAGCATCTGTGGGTGTTTGCAAAGGTCTGAGTGTTGTTTCTATGTTTATATTAAAATAATTTTTAAAGTTTCTGGATTTGTGTATATATGTTGCTTATTTTAAAATCCACATATTTTAATCTTTTCTTAG
Seq C2 exon
GTTTTTGTTTCTGTTACTGGGCCCAGCAGGAAAGGCTCCACAGTACCATGAAATTGGCAGATCCATAGCAACTCTAATGACAGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005957:ENSRNOT00000008759:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.003 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(13.3=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(10.8=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:
ATTCCTACAGGAGCTGAGGCA
R:
CTCATCTGTCATTAGAGTTGCTATGG
Band lengths:
222-1602
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]