RnoINT0138582 @ rn6
Intron Retention
Gene
ENSRNOG00000028879 | Slc4a8
Description
solute carrier family 4 member 8 [Source:RGD Symbol;Acc:735164]
Coordinates
chr7:142462675-142464043:+
Coord C1 exon
chr7:142462675-142462770
Coord A exon
chr7:142462771-142463841
Coord C2 exon
chr7:142463842-142464043
Length
1071 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
ATTGTGACATTGTTATCCAGCCC
3' ss Score
3.64
Exon sequences
Seq C1 exon
ATGTGACCCTTCTGAGATTAATATATCAGATGAAATGCCTAAAACCACAGTCTGGAAGGCTCTCAGCATAAATTCTGGAAACACGAAAGAAAAAAG
Seq A exon
GTAAGGAGAGCTCTGGCTCCTGACTTTCATTTTCCCCTGTCTTTTGAAAACGGTGACACTGTTGATGGTAAAATGAGTGTTGCTTGTAGGACTGAATTTGTCTCGTAAATAACAGAACTGTCGCTAACCGTACAGTAAGACAAATAAAAATAAAAAGTTTCCAAATGTCTGGAGACAGGACGTTCTGAGCTGTCTCTTCCCTCCGCTCCCAAGGGGAGGCTGTAGTTACTTTGGAGAGTAAATTTGCTTTATCGTTTAGTTCCCACTTGCAGGAAGTTTCTCATTCCAGAATCTAAATATTGTCCCTGGTCACTGCAACAACACAAGCTGGGAAATTGCTAAACGCCTGGATCAATACTGTTAACATATAATAAACAATATGATAGCATTGGCCCAGACTTTAACCTACTTAGCTGAGATCCCGAAAAGAGAATTTTGCTAAACATGACAGTTTCCTTATTCTGCAAAGCAATTTCTCTATATAATTTAATAGTAGCATAGGTCAGTTATAATCAGATTATCAAAGAAAATTGGAGGTGTCTGTGCCTACATTGAGGGATGTAATGTATATAAGTTACTGATTCGAGCCCAGACACCACTTACATTTAAATCATAAGATAAATGAAGGCAAAAATCCAAAGTCTTGATACAGACAACAGTTTTTATTAAAAACAAGCAGGTCAGGGACCAGGAAAGCGGTCCCTCCCTGCTTTTATTTATGCACGTAGCCTGGCCTATTGCTGCTCCTGGCATTCGGCTCGGCTGCAAAATTGGGGTTCTAGTGAGGTTCATCCAGGAGCCGAGCACTTCGTGGAGTCGTGGGCACCAGCACATGGTATGGCAGCTCCTTCACTGAATGTGTTAAAGTAGATGTGAGCTGAGCACAGAGCCTTGCTTCCCTCCGAGGAGAATCCAGGCAGCTGTGGGGATGTATAACACGTGTGGTTATTTTTAGTTGAGAACTAGTCTACTTGTAAATGAACTTAAAATGCAGCCAGATCCAAGCCGAGGTGGCATCTTCAAAGTGTTGTGAGAGAGGGCGCCTTGTCTCATTGTGACATTGTTATCCAG
Seq C2 exon
CCCCTTCAATTGAGAGTCTCCGCTGGGTGGAAGACTTGGGCCATGAGGTGCCTCGGAGAAGTTCTGGGCTTTGAGAAAATGGCGAGTCTCTCCGGGAAGAAGCCGGGCTGAGTCTGGCCCTGTTCTTGGTCATCTCGAAGCCACATGGAAGCATTCAGTCACTCCCGGTGTGCGTTTGGAGGGTATCCAGCTACCCCACATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000028879:ENSRNOT00000040890:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.212 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
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:
CAGATGAAATGCCTAAAACCACAGT
R:
TATGTGGGGTAGCTGGATACC
Band lengths:
272-1343
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]