RnoINT0138530 @ rn6
Intron Retention
Gene
ENSRNOG00000010378 | Slc4a5
Description
solute carrier family 4 member 5 [Source:RGD Symbol;Acc:1303009]
Coordinates
chr4:114994454-114995412:+
Coord C1 exon
chr4:114994454-114994627
Coord A exon
chr4:114994628-114995259
Coord C2 exon
chr4:114995260-114995412
Length
632 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
TGCCCTTCTTCCCACCCCAGATC
3' ss Score
10.6
Exon sequences
Seq C1 exon
TTCTGGGACCGCTGTAAGCTTTTCCTCATGCCAGCCAAGCACCAGCCGGACCATGCCTTCCTGCGCCACGTGCCCCTTCGCCGGATCCACCTGTTCACCCTGGTGCAGATCCTCTGCCTGGCCCTGCTCTGGATCCTTAAGTCAACCATGGCTGCTATCATCTTCCCGGTCATG
Seq A exon
GTGAGGAGGGTGTGGTGGGCTCCTTGGTGCTTGGCAGATTGGGCAGGGCAGTGCCTCCCAGCAGGCTCAGTGGCAGTGAGCAGAGAACAGGGCCATAGAAACAGTGCATAAAAACCCATATGCTGAGGTCAGGGCAAAACTCAGCCAACCTCCCCTGATGGGCAGGTGGGGTTAGGGGATGGGATGGGGAGGGGATGGGGAGGGGGTGGGGAGGGATTGGGGAAGGGTGGGGAGGGGTGGCGCAGGCTTGAGGAAGCTGAACAAAGCAGAAAGACAAAGCTCCCAGTGGTGAACCTCAAGTTGGTCTTGGAAACAGAATAAAATAGTAATTTTTTTTACCGTGTAAAACAAATGCAACTGAAAAGAAATGAACCATGTCGGGCAGAGACCGTGCTCAATTCAAGAACTTAAAAAAATGTATACTGGACATGGTGGCTGTGGCCCGTAACTCCAGAACTAGATGCCTTGATCTTCAGAGCTTGCTGGCTAGTTAGTCTTGGGGACACAAATCTGCAAAGACACTGAACACAAACGGTTCCTGAACTCAGCCAACTGGAGAGAAAAACCCAAGCTCACAGTTGTCCCTGAGCTCCCACAAAGCTTCAGCCTTTCTGCCCTTCTTCCCACCCCAG
Seq C2 exon
ATCCTGGGCCTAATCATTGTTCGAAGGCTCCTGGACTTGATTTTCTCCCAGCATGACCTGGCCTGGATTGACAATATCCTCCCAGAGAAGGAGAAAAAGGAATCAGACAGGAAGAAGAGGAGGAAAGAGGTCCACGAGAACACGGACAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010378:ENSRNOT00000014249:23
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=0.343
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(13.0=58.6)
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:
TCTGGGACCGCTGTAAGCTTT
R:
CTCCTTGTCCGTGTTCTCGTG
Band lengths:
326-958
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]