RnoINT0138558 @ rn6
Intron Retention
Gene
ENSRNOG00000005957 | Slc4a7
Description
solute carrier family 4 member 7 [Source:RGD Symbol;Acc:621208]
Coordinates
chr15:11836407-11838559:-
Coord C1 exon
chr15:11838452-11838559
Coord A exon
chr15:11836567-11838451
Coord C2 exon
chr15:11836407-11836566
Length
1885 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGCT
5' ss Score
5.82
3' ss Seq
TCATTGTTTGTTTTAAACAGCCC
3' ss Score
8.46
Exon sequences
Seq C1 exon
TATTGACCCTTCAGTTGTTAACATATCAGATGAAATGGCCAAAACTGCCCAGTGGAAGGCACTTTCCATGAATACTGAGAATGCCAAAGTAACCAGACCTAACATGAG
Seq A exon
GTAGCTATAACCTTATGCCTTTGTAACTGTTGCTAGTGTCCACTCACTGATTCACCTAATGTATCTAAGTATATCCTCTTTGTTGGACAGAACCAACGCCACTCCCTTTCCTTCCATCTGTTCTTCTACCTTGATTGTGTTCTGCTGTGGATTGTGATGATTACGTATTATAATTTGAAATTTAAAAGTGCATTGTTCAAAACAGGACTTTCACCACTTTATAATAAAAATAAATTCTGCCTAGCAGCGTATATATATTTTGCGGATATAATTATATTAACAAATTAAGTATATATTCATAATTAAAGATTTGGTTGAATATAATTATATTCAAATTAAAAGAAAGTTACTAAAAGTGAATGCTACTGGGCATAGTGACTCACACCTGTAATTACAGTTCTCAGGAGGCAAAGGCAGGAGGAGGGACCCAAGGTCAAGGTTGGTGTGGTACGTGTACCAAGTTCCAGGCCAGCCAAGTTTTCATAGCAAGAACCTGGTCTGAATAAACAAGTAGACAGATACGTTAGCTAGCTAGCTGGATTGATTGATAGACTGATTGATAGATAGATAGATTGATAAATAAATGACAGACAAGCAAGTAAATAAATGAATAAATGAATATGCTTTCTTTTGACCAAAGAATAAAGAAAAAGAGTTGTTTTTCTAGTGTTTTTTGTTTTGTTAATCTTCTTTGGGTAAGATACAAATTCTCAGGATGATAATTTTAAAGAAATTTAATTCACACATACAAACATAGACACAGGAAATCAGTTTTATCACCATATATATCTGTGTATATGGGTGTATTTTTTTCCTATGTATGAATAAATATAAATCCAGTTTTGCAGTGAGTCATATATTGAAACTTATTATTATACAGCACTTTTTTTGTTGTTTTTCTTCCTTTGCTTCAAGTGCAGAGACCCCAGGAATCTTATTTTGATATTAGAACTTTAGATTTTATGTTGGAACAAGTGAGACACCTTCCTGGGAGTGCTCAGTGTTTCATATACTGCACTGTCTCTTCACCGGGTGTTGGTTATTCTGCCCAGGCACTCGGTCATGTCATTCCAGGCCTTTCAACCTGTTCTGTGTAGCTGCTTTCTCTTTGAGCTCTGCCTTGTGATAAGTATTTACTTATTCATTCCTTTCTTTTCATAAAGTCCATGTTCTACTTCATCTGCAACCTTCCTTTTTTTTTTAAATTTTATTTTGATATTTAAAACAGGGTCTTATTGTGTAGCTCTGGTTTTCCTAGATCACACTATATAGCACTGGCACTGGCTGTCCTAGAACTCACAGAGATCCACCTGCCTCTGTCCCAATGCTGGAATTAAAGGTGTGCACCAGCATGCCCAACTCTTAATATATTTTTTGATCTTCATTTCTTTACTTCTGATTTTCTAAGCTTGACTGTTCCTTCTTTCAGTTTCTGTCTTTATCCTATTGGATTTTGCAATTCTTTGAACTTCACTCTCAGTTCCTATGCACGTTCTGCCAGCACCCTTGACTCGGATCGTTAATATTGTTATGGTGAAACTAAAGGCTGTGTAGTAATACTAGTGCGTACCTTTTGTATTTAGCTTGTCACGTGGGTTGGCCCTGTATTCAAAATCACATGTGTAAATAAACCATCTTCCCTTTACTCGTGCTAAAAATGTGATGTGTTGACAACAGGAAAGGGTTCAAAGAGAGTGAGGGGCTGAGTATGGATCAAAATACAGACTGTTTGTATACAGAAGCATCCAGATTATAATACCCAGTTTGAAAATTGGTGTTAGCAAGCAATTCAGAGGTATATTGTAGATACTGTGTGTTGACAATTTGACAATTTAGAGTTCATTCTTTTAAAAATAATTTTTTTCTCATTGTTTGTTTTAAACAG
Seq C2 exon
CCCTGAAAAGCCTGTGAGTGTGACAATAAATTTCGAAGATGAACCATCAAAAAAATACATGGATGCTGAAACTTCATTGTAAAGTCAAACCAAAAGGAATATATAGAGATATATGCCTATCTGTGTGTATGCACAAACACACACACACACACACACACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005957:ENSRNOT00000008759:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.405 A=NA C2=0.733
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACCCTTCAGTTGTTAACATATCA
R:
TGTGTGTGTGTGTGTGTGTGT
Band lengths:
262-2147
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]