RnoINT0010346 @ rn6
Intron Retention
Gene
ENSRNOG00000046890 | Abca6
Description
ATP binding cassette subfamily A member 6 [Source:RGD Symbol;Acc:1308998]
Coordinates
chr10:98533254-98534529:-
Coord C1 exon
chr10:98534388-98534529
Coord A exon
chr10:98533440-98534387
Coord C2 exon
chr10:98533254-98533439
Length
948 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
CACTGTCTTCTCTCTTTCAGATA
3' ss Score
13.12
Exon sequences
Seq C1 exon
GCTGTCCTGGGGCTTAATCTATGTTGGCTTCATCTTTATTTTTTCTGTATTCATCGCCGTTATCATAACATCTACCCGGATCATAGTGATGACTGGTTTCCTCGTCATATTTACACTGTTCTTCTTGTATGGACTATCCGTG
Seq A exon
GTAAGTATGCGCCTTTACTGCCACCGTCTACACGGTAGATCTTAGCTATGTGCAGCAAACGTTAATTCTCCAGAGTGTTAGGAAGACACTTCAATCATATCCTGTGTGTATGTGTGTGTTTGTGTGTGGGAATACTGTGTGTGTGTTTGTGTGTGTGTGAATACTGTGTATGTGTGTGTTTGTGTATGTGAATACTGTGTGTGTGTTTGTGTGTGGGAATACTGTGTGTGTGTTTGTGTGTGTGTGAATACTGTGTATGTGTGTGTTTGTGTATGTGAATACTGTGTGTGTGTGTTTGTGTGTGGGAATACTGTGTGTGTGTTTGTGTGTGTGTGAATACTGTGTGTGTTTGTGTGTGTGAATACTGTGTGTGTGTTTGTGTGTGTGTGAATACTGTGTATGTGTGTGTTTGTGTGTGTGAATACTGTGTGTGTGTGAATACTGTGTGTGTACGTGTGCACACACATGTGTTTGCTTGAGAAAATGCCAGTGACTATAAGAAACAGGCCTCTCTGTTTTCACACACATCTTGTAATGAAATGATGCATCAAAGTTTTTTTTTTAATAACAATCTTTTAATTGAGTTATTTCAGAATCTTAATTCTGAAACTTTTGATGATAGTGAACGATAAAAAAAAAACCAGCTTGCTAAGCTACTACTACATTCTTCAAATTTGCTACTTATTTTATCATGGCGACCCGGAACACTGGTCTCATGCAGCTATGTTTTAAATTTTATGCCAGTATTTTCAGTAGCTCTAAACAAAAAACAAAACAGAAAACAGGAAGGGAATACAAAAGGAAAAGAAAACATCTGAGGGTCCAACCTTTGCACTCCTCTTGCTTTCCCAGTTGCACTCCTCTTGCTGTCCCTTGTAGGAACAATGGTCTTCGTTTTGCTGAGGGTCCTCAAAAGCTGTATGACAGCCACTGTCTTCTCTCTTTCAG
Seq C2 exon
ATAGCTGTAACTTTCCTGATGGCTGTTCTGTTACAGAAAGCGATCATCACCAACCTATTTGTATTTCTCTTTAACCTCTTTTGGGGGTGTGTGGGGTTCACGGTGCTGCACAAAGAGCTCCCCTCATCTCTGGAATGGGTCCTGAGCATCTGTAGCCCTTTTGCCTTCACATCCGGGATGACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046890:ENSRNOT00000073149:6
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:
PF126982=ABC2_membrane_3=FE(12.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(15.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGTCCTGGGGCTTAATCTA
R:
TGGTCATCCCGGATGTGAAGG
Band lengths:
326-1274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]