RnoINT0138482 @ rn6
Intron Retention
Gene
ENSRNOG00000020138 | Slc4a3
Description
solute carrier family 4 member 3 [Source:RGD Symbol;Acc:3712]
Coordinates
chr9:82753769-82755153:+
Coord C1 exon
chr9:82753769-82753942
Coord A exon
chr9:82753943-82754882
Coord C2 exon
chr9:82754883-82755153
Length
940 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGG
5' ss Score
9.63
3' ss Seq
CCCTGTGCTCTCTTCTGCAGCTG
3' ss Score
12.44
Exon sequences
Seq C1 exon
GTGAAGACATGGAGGATGCACCTGTTCACCTTCATCCAGCTGGGCTGCATCGCGCTCCTCTGGGTGGTCAAGTCAACGGTGGCCTCACTGGCCTTTCCCTTCCTGCTCTTGCTCACGGTGCCTCTGAGGCGTTGCCTTTTGCCCCGGCTCTTCCAGGACAGGGAGCTGCAGGCG
Seq A exon
GTAAGGGATGGTGGCTGGCTTAGGGCTGGTGGGCTCCGGTTAGATTCCTGGGTTCCTGCCGGCGTGTGTGAACCGGGCAAAGCGACTGGAATGCTGTTTTCACTGGCATAATGGGGTTGTAGAGCCGACCAAATAAGCTGGCAGGAGATTTAGCTACAGATCCAGGTAAAGCTGCTGATAGGAGGCTTCAAAAAGGACAGGATGGGGCCGCTGTGGACAGTTGTGCTGGTTGTACCCAAGCAAAGCACTTGGGTGGGATAGCACAGACATCAGTCCTGGGCCCTGTTTCTGTCAGCTGTAACAAAGGACATCTTTTTTGTTATTCTTTCCTGTTTTCCTTCTTTCCTTCTCTTTTTCTTCCTCTTCCCTCCTCCCCCCTACTTCCTCCTCCTCCCTCCCCTCCTCTTCCTTCTTCAACAGTTTTCTTGTTGAGGGGTTTCCTTGTGTAGCCCTGGCTTATAGACCAGGCTGGCTTCAAGCGCATAGAGATCCACCTGCCTCTACCTTCTAAATGCTGTGCACTACCATACCCGCTTTTGAAAATGTATTTTATGTGTGTGTGCTGAGGTCAAAGGGCAACCTTTGGGAGTTGGTTCTCTCTCCACCATGTCAGTCCTGGGGATTGAAGTTGGGTCATCAAACTTGGTGGCAGCACCTTTTTCTGAGTCCTCTCACTGTCTGACTTTTGCAGTTCTTTCATGCTCAGATGTGGGTCACAGAGGTGCCACAGCCCTGGGCCTGTGCATCCTCTGTCATAGTTGCTATTGCACTGGTCCATTTGGGTGTTCTGGGTGATCTGGAAATGAAGGTTTGGGGCAGGGAAGCACTTCCAAGCTGGGGTCCTGGAGAGGGAGAGAAGGTGTTCAGAAGAGGATATGAGGACCACAAGATGACGTTTGCTGTCCCCCTGCTTTCCCTTACCCTGTGCTCTCTTCTGCAG
Seq C2 exon
CTGGACTCTGAAGACGCAGAGCCAAACTTTGATGAGGATGGTCAGGATGAGTACAATGAGCTCCACATGCCTGTGTGACCCTCAAGATGGTGGCCCTCCGAGACCCCACCTTGGTGACTCACCTCAGGACCCAGGGATGTGCCTGGAGTCACTGCCCATGCCAGGACAGTGGCCCCTTGACTTTCACAGCCCAGACGGCACCGGCTTTGAAGTCATTATAACACACTCCTTGTCTTGTGTCTGCCTCATTTTCTTGGTGCCACCAAATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020138:ENSRNOT00000027337:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.360
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(3.7=19.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCACCTTCATCCAGCTGGG
R:
CTGGGCTGTGAAAGTCAAGGG
Band lengths:
345-1285
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]