RnoINT0138572 @ rn6
Intron Retention
Gene
ENSRNOG00000028879 | Slc4a8
Description
solute carrier family 4 member 8 [Source:RGD Symbol;Acc:735164]
Coordinates
chr7:142446825-142447791:+
Coord C1 exon
chr7:142446825-142446930
Coord A exon
chr7:142446931-142447629
Coord C2 exon
chr7:142447630-142447791
Length
699 bp
Sequences
Splice sites
5' ss Seq
AGCGTAAGT
5' ss Score
10.07
3' ss Seq
CAGAGTGCTTGTTGCTCCAGGAA
3' ss Score
5.51
Exon sequences
Seq C1 exon
CTGCAGGTGTGCGCTCCCCGAGAATCCCAACAACCACACCTTACAGTACTGGAAGGAGCACAGCATCCCGACTGCAGACGTGAACTGGGCAAACCTGACTGTCAGC
Seq A exon
GTAAGTCTGGGCATGACTGGAGGCTGTGGTGACCGCCCTGGTCTAGGAAGGACTTTAGATGCAGGTTGAGCAGCACTGTGCTGGGCCCTGGCCTTTAAGCTTAAGCGGATGTAGTGTCACCTGTAACCCTAGCGCTTGGGAGACCAAGGTTAGCAACATTGTAAATTTGAGGACACCCAGGGCTATACTGTGAGGTTGTCTGAGATCTAAAAATGGGCTATTCTGACCATATAACCGGTAACCATGTGTGGGCCTGTTACTGGTCAACTCTGCTAAATGGTATTGATAGACTTACAGATTTCCTTGCTGTTTTCATGCTAAAATTGCTACATTTTATTTATTGATCACCATAGCATCCTTATTGGAGCAATTATCTGATGCACATTTCTATCAAATATCCAAAGCCTGAATGTTCAAGTTTCAAGGTTCTAATAAAGATGATAGTGACTTCTAAGTCCTTCCCCAAGCCTAGGGAGAAATGTCTGTCCCAGGCAGTTCTAGCTTCATGTCCAAGTGCCTTGGTCAGAGCCACACAGTCTTGACAGGGACCCGCTAGCGAGGGCCGCAGCCTGCGTGGTGGTCAAGTGGATAATGTGGGGACCCTGCTCCCCAGTACCCATGGGATGGCTGTGCATGGTGAAGGCAGCAGCTGGTTGTTGTGTCCCCAGCTGTTGTCACCCAGAGTGCTTGTTGCTCCAG
Seq C2 exon
GAATGCCAGGAGATGCACGGGGAGTTCATAGGATCGGCCTGTGGTCACCATGGGCCCTACACGCCTGACGTGCTCTTCTGGTCCTGTATTCTGTTCTTCGCTACCTTCATCGTCTCAAGCACCTTGAAGACGTTTAAGACGAGCCGCTACTTCCCAACGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028879:ENSRNOT00000040890:15
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=PU(3.3=22.2)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(10.3=100)
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:
GTGTGCGCTCCCCGAGAAT
R:
CCTCGTTGGGAAGTAGCGG
Band lengths:
262-961
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]