RnoINT0138542 @ rn6
Intron Retention
Gene
ENSRNOG00000005957 | Slc4a7
Description
solute carrier family 4 member 7 [Source:RGD Symbol;Acc:621208]
Coordinates
chr15:11868929-11870978:-
Coord C1 exon
chr15:11870891-11870978
Coord A exon
chr15:11869076-11870890
Coord C2 exon
chr15:11868929-11869075
Length
1815 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATT
5' ss Score
8.88
3' ss Seq
CAGTATCTTCTTTTCTTTAGATT
3' ss Score
8.17
Exon sequences
Seq C1 exon
GTTTTTGTTTCTGTTACTGGGCCCAGCAGGAAAGGCTCCACAGTACCATGAAATTGGCAGATCCATAGCAACTCTAATGACAGATGAG
Seq A exon
GTAATTAAACTACAGTCAAATTCCTTTGAGCTAGACAGTAAATATGCAATTATAGTCCATTCTCTCACAGTAAAGCTTATAAAATTATCTTTGATGTCTGTGCTATTTTATTTCATATTCACTCTTCCTTCAACAGGCCTTTGTTGAGGTTTAAGACCTATTCTAAGGAATCGGTAGTTTTTAACCTATTTTGCTGCTGTTCTTGTATTTTTACCTCATTGTTTGCATTGAAATTTTGAAATTTGTTTATAAGCTACATTATGGTCCTAAAATTTCAGAATGTTGTTTCTTTGGGCTTTCCTTGGAACTTCACTGTGTCTCCTTACTTCTCTTTTGGTTTGGGGATGTCATGTTTGGCTGTAACTTCTTTAGTGATCAGGACTTCTGTTTCTTTGTGAGAAGTTTCCAGTAATTCTTGCCAGACATTGCAATGCATCTATCTGCCCAGGGCATCAGAAACCCTGGATATCTGAATCTGATCTGTGTTAGCTTCTAGTCACTGCTATTTTTAGGTTTAGACTCTATCTGACCTTTTCTCTTGTAATTCAAGTGATTTACTAATTTTTTATCTATATTGATAATAACATGTTCATGTGGGTCTAATATCTGGATTTTTTTTTTTTTTTTTTTTTGAGTTGGGGTTTCTACATAACCCAAGCATGCCTCAAACTGACTATGTAGCCCAGGCTGGCCTATCTCTTGTCATTCTTCCTAGCTTAGCCTCTCACGTGCTGGGTAAAGGCATGAACTGTCCATCACATTTGCTTGAAGTTCAGATCCAAACCCTTTCCTAGTTTTGGCAGAGGACCTTGCCTCTTCTGCTTGCTTGCATCCTGATACTGCCTACCCTGCTCACTTTGCTCTGGCAATAGCTGTCTTCTTTCTGTTTCTTGGATAAGTTTTGCTATTTATGCTCCTATTTGCTACAACTGTGACTCCTTTTACCATCCGCCCTACCCTCTCTACCTGTGGCATGATTTCTCCTCAGATATCACCTCTGTTTTGTTTTTGTTTTTATAAAGTTTTGCTGTTTAGCCCAGACTATACTCAAATTCACACCAATTCTCCTGCCTTTGTATTCAATTGTCAGGGTTATCAGTCTTTTCTGCAACATTTCTTGGCTGCCTATTTTTCTATCAGCTTTCTATTCTGCACTTTGCTTAACTTTTTTTTTTTTTGTTTTGTTTTTTTTTTTTTATTGTTGTTTTTTGAATGTTTGTTTCTCTTGGAAGCTTGTCATTCTGGGCAATTACTTAACTCACTATTCTGCCTGGAAAGACTGCATTGTTTTTGTTTTCTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTCACATACAACATTGCACCTAGCAAGTCTTAGGTAACCAGTAAATACTTGTTAAACACAATTACTTCGTTGTTCAGAATCATTCATTCAGGATAAATAACACTTTAATGACATAAATAAAATGACCTGACATTATTGTTATGAATTAACTTGTAACAAATTGTCGTTAACTTATGAAACGTGTTTTCTTTGTATTAATGCATCGTTTTCTTTGAGTGTTACTGATTGATCTGTTAATACTAATAATGGGCTAAGTATTGCCGGGCGGGTGGGTGCCTATTGCTGATGAGAACTTATGTCTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAAACAGGTCCTCCGTGAGCAGTGAGTTGTGTTAACGTATACCATTGCTCCACCAATATTTTGTATCTAAAGTGCACTGCAGTGTAGTTAGATTTTTCTTCCCACCGTAAAATTCTTATGCTCAGTATCTTCTTTTCTTTAG
Seq C2 exon
ATTTTTCATGATGTAGCTTATAAAGCAAAAGATCGAAATGACCTCTTATCTGGAATTGATGAATTTTTAGATCAAGTAACTGTTCTTCCTCCAGGAGAGTGGGATCCTTCCATACGCATAGAGCCACCAAAAAGTGTTCCTTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005957:ENSRNOT00000008759:10
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=0.163
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(10.8=100)
A:
NA
C2:
PF075658=Band_3_cyto=PD(13.4=73.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGTTTCTGTTACTGGGCCCA
R:
GAGAAGGAACACTTTTTGGTGGC
Band lengths:
230-2045
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]