RnoINT0138587 @ rn6
Intron Retention
Gene
ENSRNOG00000028879 | Slc4a8
Description
solute carrier family 4 member 8 [Source:RGD Symbol;Acc:735164]
Coordinates
chr7:142433751-142434691:+
Coord C1 exon
chr7:142433751-142433842
Coord A exon
chr7:142433843-142434533
Coord C2 exon
chr7:142434534-142434691
Length
691 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
AGGTTCTTTTGCCTTTTTAGGCG
3' ss Score
8.88
Exon sequences
Seq C1 exon
GGCAAACCGTGTCTCCTCAGTCTGCTCCAGCTACCAACCTTGAAGTGAAGAATGGTGTGAACTGTGAACACAGCCCTGTGGATCTAAGCAAG
Seq A exon
GTGAGGAGACGTGGCAAGGTGGCCTCCCACGACCCCAGTCAGGCGCTGCTTCTGTGCAAAGAGCACCCACCACCCTCGTCTTCTCCCTCCGTATAACATGCACACAGCCTGGGCAAGGCTGCTCCTCAGGGTCTCTGACGCCCTGCAGTTCCTCCTGATCTTCAGGTTGTCCAGACGGCATTGTGCGTCTGCCTCCTGGCGCCCCTAATGTTCCAGACTCTTCTTGGGGGCTGTGACTCTGACGAAGCAGTCAGGCATTAGAAAGGAAACACGCGACTCGAAGCCTCTGTGGCATCTCCTCTCTGAGGAGATCGATGGGATGGAGGCCAGAACTGTTGCACTGAAACCCTCACAAAGCAGGGAGAGTGCTGATTCTCACGGTGTTCTCTGGCCACACGTGTGCTGCTGCATGTGTGGACACATGTGGACACACGCTAATTTACATGTATATATTTCTAGTTGAGGTTCCCGCCCTGGGTCTTAGTTGCTTGGGTTGGTTTGTTTGTTTTGTTTTTAAATGGTGGGACCGATGGGATCTGCGTGACCTCCACTCAGGGTTTTTGTAGAGATCAACTAAAACAGCGAGGGGCGTTTCTAACCTTGAATGACACATGAAGTAGAGCCGTGAGAGGGTGACTGGCGTTGAAGACGACGGCTCCCAAACCATCAGAAGGTTCTTTTGCCTTTTTAG
Seq C2 exon
GCGGACCTCCATTTCATGAAAAAGATTCCCGCAGGGGCAGAGGCCTCCAATGTCCTGGTTGGCGAGGTGGACACTCTGGACCGGCCCATCGTCGCTTTCGTGAGGCTCTCCCCGGCCGTGCTCCTCTCTGGACTGACAGAAGTGCCCATCCCAACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028879:ENSRNOT00000040890:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.581 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(11.5=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(20.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAACCGTGTCTCCTCAGTC
R:
GTTGGGATGGGCACTTCTGTC
Band lengths:
246-937
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]