RnoINT0010335 @ rn6
Intron Retention
Gene
ENSRNOG00000046890 | Abca6
Description
ATP binding cassette subfamily A member 6 [Source:RGD Symbol;Acc:1308998]
Coordinates
chr10:98539114-98541324:-
Coord C1 exon
chr10:98541166-98541324
Coord A exon
chr10:98539218-98541165
Coord C2 exon
chr10:98539114-98539217
Length
1948 bp
Sequences
Splice sites
5' ss Seq
TAGGTGACT
5' ss Score
3.75
3' ss Seq
TCCTTTCCTTTTGCTTACAGCTC
3' ss Score
10.52
Exon sequences
Seq C1 exon
GAACAAGAATTGTCGGGGTACCAAGTGAAAAGGACTTGGATGAAATGCTTCTGGATCATGTGCCACGAGCTTTTGGAATCGTATTTAATGACACTTTCTTTTACAAGTTAAAAGTGTATCTAATGTATGGAAATCCATTTCTGAAAGAGGACCTACTAG
Seq A exon
GTGACTTTTTAATATAAAATTCCATTGTGAGAGTCTTTATGGTTTTTGAAAAGAAGGAACAGGTAGCGTGGGGTGGGCACCTTCAATTTCCTGGGAGAGAACAGGCTAACATTTTATCACTGCACTTGTATTTGGGGTAGAGGTGGATTCCAGAGCACCGCAGAATAATTCAGCACGTATCTTTTGAGCTTACGGGTCTAAGGGAATGATGGGTAGATCCCAATGTCAGATGAGGTTGTAGTTGAATACGAGAGGCAAGTACCAGATAATGAGGGCAAGGGATGGGACTTGCGTTTCTAACGCAGACCCAGGATTCTTAATTTGACTTTTGGATTTGGGGAGTAGCTTTTAAATTGAGACCAAAGGAACAGAAAGTGTGAGGAACTGGAGATACAGTGTCCTAGTAGGACAAAGGTGTATGAAGGCGTCTTATCAAACGCTGGAGGAAAAGCCTGAAAAGCCACACCATGTGAGGGGACAACGATTTTGCAGCCGCAGTAGGGTTAGGTCCCGTTTGGTATCTTTTAAACGAGGCCACAGATAGCCACTGAAGTAATTTAACTAAGGCAAGCCCATGGAAGGTTGTCCGTGAATAAAAGAGCACTCCTGATACATCCCAGAGAATTTGAGGTGCAAGAAGTCCAGGGAGAATGGACTGAAATCAGACGGCTGCTTAGATGACAGCGGCGGCAGGGAAAGGTAGAAGGCTTGTGGGTTAAAAGACACGGAGGACATAGAATCGGCGCAATCTGTAGAACAGGTTCTTTAATGCTATTCACGTGCCGTGTGCAGACTGATACTATTCACGTGCCGTGTGCAGACTGATACTATTCACGTGCCGTGTGCAGACTGATACTATTCACGTGCCGTGTGCAGACTACATATTCTTCAGCGGGTTCTTGCAGAATGCAGTGAACGGAAACCATGGGGCCCGTTTGAATTGTTCTCCTCAGAGGCGGGAGGATAAAAAAGATACACAAAGGAGATGAGAGGGTAGAGACAATAGAGCTACTCTAGATATTTATGGTGGCCAGGAAGCCCCCTCTGGGATGGAGTCATTTTTTTGTGAGAATAGGGTAAAGGGGCAATCGGTCTCTATAAATAAAACTGTCATAGATCTGTGAGTCTAGCTAAAGGTTTATCCAGAGACACTCAATTGCAGAGTTGAGGCTGTATTCAAATGCTACAGCGCAGGAGAGGCCAAACGAAACTATTGGGAAGATGGTTCCCGAGACTTGCACAATATAGGTGGTGTCCTTCCCCATTTTCTGTTTCTCCCCCCCCAGAAAGAGCTGTAGTCTTTTGTCTTAGTCATTCCGGGTCTGTGCAGTAGCTTGTCAGGAGTCCTCAAACATTGCTTCTCATTAAACATCTCCACTTTCCACCCAGAGGGGTAGAAATAGTCATTTTACTATGATAATTAATTCCAGGTTATTTGGGGACAAAATTTCTTCTTATGCACATATCCCACTTTAGGTTTCTAGGTACAGAATTGGGAATTGGTGGTGGTGTTGGAGGTGGTGGAGGTGGAGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTGTGTGTTTTCGCTATGGAAACCCCAAAGCCTTGTTTTTCGTCTCAGGAAGCTGGGTTATCTCTATCCCTAGTCTCATGGTGTGTATCAGAGTAGCTGCTTCTTGTACACTACACACCCTTCCTCTTAACATGTCTGCCTCATCTCAAAACTACTTCATTAGTTTGTTTTCTTGCTTGCTTTGGTTGAGACAGGGTTATGACATACCCCAGGCTAGCCCAGAAGTCCATTATTCTCCTGCTTCCTGAGTACTAGGATGACAGACAGACCACCATGCCTATCTTCTGTACGAGGTTAAGCGTTCTGACTGGTGGAGTCTCTTCCCCTTCATGTTCTCTCCTTCTGCCTTCAGCCCGTGATGATGGTGAGTCCTTTCCTTTTGCTTACAG
Seq C2 exon
CTCATTGCTGGGATACATATCCTCACGTTTTCTGTTCACTGACCAGATACTGGAAAAGAGGATTTGTGGCCTTACAAACTGCCATTAACGCGGCCATTATAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046890:ENSRNOT00000073149:3
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(13.6=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(8.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAGAATTGTCGGGGTACC
R:
TCTATAATGGCCGCGTTAATGG
Band lengths:
260-2208
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]