RnoINT0138581 @ rn6
Intron Retention
Gene
ENSRNOG00000028879 | Slc4a8
Description
solute carrier family 4 member 8 [Source:RGD Symbol;Acc:735164]
Coordinates
chr7:142461311-142462770:+
Coord C1 exon
chr7:142461311-142461402
Coord A exon
chr7:142461403-142462674
Coord C2 exon
chr7:142462675-142462770
Length
1272 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TGTCTGAGCTTTGGTTTCAGATG
3' ss Score
6.84
Exon sequences
Seq C1 exon
GAGGCTGAGAAGATGTTGGATATTGGGGGTGATAAGTTCCCCCTGGAAAGCAGGAAGTTGCTAAGTAGTCCTGGCAAGAACAACAGCTTCAG
Seq A exon
GTAAAACTCCCAGGTACCAGCGAGCTTGCCTCGGGGTCCTGAGACATGGAGCTCTAAGGAGCGGTGTGGCCGGGCACCGCCCCTTGAAAACAGCTTTCCATGTCACTGCGCTGATGCCTGCTGGGTGGCCTGCTCTGCGGGCCTGGGAGTCAGCCAGTGTCCCCAGTGCTCGTCCCATGTCAGGGTGTCCAGCAGGGTCTGTCTCTGTCCCCGTCCACTTCCTACGGTTACCGTTGGCCAAGGCGCCATGGTTACAGCACTGCTAATACAGACCAGGATTCAGACGGCAGCTCTTCCCTTCTCAACTCCAAGTTGTTCCTTTCCACTTTCCTAAGTCCTAGAGCCCGAGAAGTTCGTTTCTAGTTTTCAGCCTGGTGGGCACGGAATGCCTGCACCCAGGCCTGTCTCTGGGGACAGGCAGGGAAGTCACTCCCATGTGGGTTACAGCATTTTAATCCAGGGAGCCAAGGAGATGCTGACCTCAAAGCCCAGGCAAGCCCCTTTCTCTACCCAGGCTGTTCCCCAACACAAAGCACGGGGTCCAAATCCCCTGTCCGTGGTTCAGTCCTGGCCTGCATGTCTGCTGGGAGGCCGCATGCCCAGGCTGAAGAAGCCTAGAAGTGAGGAGAGCTAGAGAGAGCCTGACATCTTGTGGAGTTAGCTGATGAGTTAAAGACTGGATGCGATTGTTACTGTGGGTAAATCAGGAAGTCTTTTCGGTGGACCCTGAGGAGTTGTCTGTGTGCCGCTATGGAACCTTTGGTGTCTCTGGCAGAGGAGCAGGCTCAGCTCCGTCTCCTGAGGGGGCTGCCTCTCTGCATTTCAGGAGACCATCTGGCCCACAGGTGGCTCTGGTGCTTTCCAGGACAAGGACCCTGACTGGAGTCTTGACACTGCTGCTGTTTGACTTTTGATGGGCACTTAGCCCTGAAAACTTTGGCTTTAAACCTTCAAAATAAGGATTATGGTCAATCTCTTCTGCTATGAGTGTTAATATTTTGTAAACTCTAAATGGAAGAAATTCGCTTATATAACAGATTGTAAAAGAGGACCCACACACAGCAGTATTGGCCCCAGTGTCCCTGGGAAGCTCGTGGCGACCTGGGGCATCCGCCAGCCCACAGCGCTAGCACTGTTCACTGGCTACCTCGCCCCCTTGGAGCTGGGCTCCTCCTGGCGGCAGACAGAGCCTCTCTCCCTCTGGCGGGGTGGTGTCATGGCTGTGCCCTTCCCTTGTGAGAGTGACACTCACTGTCTGAGCTTTGGTTTCAG
Seq C2 exon
ATGTGACCCTTCTGAGATTAATATATCAGATGAAATGCCTAAAACCACAGTCTGGAAGGCTCTCAGCATAAATTCTGGAAACACGAAAGAAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028879:ENSRNOT00000040890:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.212
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGCTGAGAAGATGTTGGAT
R:
TCTTTCGTGTTTCCAGAATTTATGCT
Band lengths:
182-1454
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]