RnoINT0138546 @ rn6
Intron Retention
Gene
ENSRNOG00000005957 | Slc4a7
Description
solute carrier family 4 member 7 [Source:RGD Symbol;Acc:621208]
Coordinates
chr15:11859545-11860996:-
Coord C1 exon
chr15:11860863-11860996
Coord A exon
chr15:11859791-11860862
Coord C2 exon
chr15:11859545-11859790
Length
1072 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
CTGTTTATATTTCAAAACAGAGA
3' ss Score
6.61
Exon sequences
Seq C1 exon
AGTGCAATAGAGTCTCTTTTTGGAGCATCATTAACTGGGATTGCCTATTCATTGTTTGCTGGGCAACCTCTAACAATACTGGGGAGCACGGGTCCAGTCCTAGTGTTTGAAAAAATTTTATTTAAATTCTGTAG
Seq A exon
GTAAGTAGAAATTCTTATCCCCTGTGTTTGTATACCTGTTAAATATATGTTACGTTGTACTGTTTGTGAATGACATTTAGCTGTATTAACAATATGTGTATCTTCAGTGTTTCTGGATTTTTTTTACGTCATTGTTCTACCAAGGTCCGTACTACCCTTCCATCCCAGTAATGTAGAGATGAGGAAAATAAGATCAGCCATCAATGCTAATTTAATTGATCGGAGTATAATAAGCAAATCATGTGAGGAACAATAAAAATCTTTAGTGTTAGCAAAATTAAACCAGTAAGATGTTTATCTGAACTGCTTTTTAGGTGCAGTGTGGATCTTACAGAGAAGTTTACAGTGCAGTAGATCTTGAAAGCCAAGACTGACTTAGCCAGGCAGTCTTGTGCAAAGGGATAAGGAGGGCTCAAAGCCATCAGTTGCCGGGTTAGTGTCTGTGGCTAGGCTGTTGGGTATCATAGGCATACTGTAGCTAATAAACTTTGAATTCAACATTAACAGTATTCGTTCCCTATATGACATATACAGTTGAGTCTTAATCTGAAACAGCATAGACATTTGAATGTTTGATTGATGTAATTCTCCCTGGTTCTCTGCTCACTGGTAACCTGATTTTAATTTTGACGTGGTGTGCTCCATGAAATTAAAGTATAGCCTTTTATAATAATCTCTTACTTGAAATGAATTCTGTAGGCATAGTGCTGGCAAGATAGTGGGTTAGTGATGGCTTTGCCCTGCTGACACTTACGGAGTCTTTACCTTCAGAGAAAGTCAGTCATGGTTGATTTAATCTGTCATTTGTTCCATATAGCTGATTGCTAATGTGAGGTCTAATGGTTTTACCCCTTTATTGTCAGGCATATCGTCACTGTAAATCTTTAATAAAGTAACCAAGTCTCCAGTTGAAGCAAAGACACAGAGCTTCTTCTAATCATTATTTGGCAATTTGGCAATTGCAGTTTTTAAAGGAATCCTGTGTTTGTGTTCTTACTGCTTGTTATGACAAACTTTAGGTGCAAGTCTGTATGTACATGGTGATCATGTCTCTGTTTATATTTCAAAACAG
Seq C2 exon
AGATTATCACCTATCCTATCTATCATTAAGAACCAGTATTGGTCTGTGGACTTCTTTCTTGTGCATTGTGTTGGTCGCAACAGATGCCAGCAGCCTTGTTTGTTACATTACTCGGTTCACAGAAGAAGCTTTCGCCGCACTCATTTGTATCATCTTCATCTATGAAGCCTTGGAGAAACTCTTTCACTTAGGAGAAATATATGCATTTAACATGCACAACAACTTGGATGCATTGACCAGTTACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005957:ENSRNOT00000008759:14
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=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(8.5=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(15.9=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:
AGCATCATTAACTGGGATTGCCT
R:
GCATCCAAGTTGTTGTGCATGT
Band lengths:
342-1414
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]