RnoINT0010473 @ rn6
Intron Retention
Gene
ENSRNOG00000059326 | Abca9
Description
ATP binding cassette subfamily A member 9 [Source:RGD Symbol;Acc:1305931]
Coordinates
chr10:98466450-98469799:-
Coord C1 exon
chr10:98469704-98469799
Coord A exon
chr10:98466658-98469703
Coord C2 exon
chr10:98466450-98466657
Length
3046 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGG
5' ss Score
7.13
3' ss Seq
TCTCTTTCATTACTATCTAGGAA
3' ss Score
8.95
Exon sequences
Seq C1 exon
ATGAGGAAGAGACGCTTGAGACTGGGTCAGCAAATGTGGGCTCTTCTCTGCAAGAACTGGCTCAGGAAGTTCAGGATGAGAAGAGAGACGCTCCTG
Seq A exon
GTATGGTTCCGCACCTACATGTTCTCATAGTTAGAAAAGGGGAAAAAAAGATACCTTCTCCGTGATACCAACATAATCGTTAACCACTGCTTTTTTAATATGTCGCAGCTATAATGGACAGGCTAGAATTTTTCAAGTCCTGGGCTTTGCTACTGTTTTTTTTTTCTCCAAATAAAAACTTTAAATATGTAGCATAATATATCTTCCTAGAGACATTTTTCAAAGAACTCATATTGAGAAATGCCCTGTAAAATGAAGCTGTATCATATGAACAGACTTATGACTCCAGATGCATATGTAGCAGAGGATGGCCTTGTTGGGCACCAGAGGGAGGAGAAGCCCCTGGTCCTCCCCCCCCCTTTCCCCTAGTGTAGAGGAATGTCAGGACAGGAGGCAGAAAGGGGTGGGTTGTTGGGTGGGGGAAGGGGGATAATACTTGAAATGTAAACAAAAAAAATCCAATAAAAAATTAGCTAATTATTTAATTTTAAACCCGCTGAGACCAGTTAACATTCTTCATATGCACAAGTGTGTGAGTGGACTCACTGGGAGTTGTCACTATAAAAGCAGAAAAAAAAATGAAGCTATATCTTTATACTAAAGAGTTAATAATTAGCATCTGGGTAATTAGGATCTCATGAAAGGCATAGACGCTGAAGTTTAGAGCAACGTCAAAGAGGCTAACTTTAGTTCATAATTACTTCAGAATGTAACCTAAGGGGGGGGGGACACAAAATACCCTTTCACAGTGACCTACTATTGGAAGTCTCCTGTTTCTCTGTGTTTCCATGCCCAAGACAATTCTCAGGACTATATGTGGCACCAACAACATGAGAACTATTCACTCACTGAGGTTCACACCAGTGTGAATTCTCAAACGCAAACGGAGGCAAACTTAGTGTTTAGACATTAACACGGATAAATATATTACGAAAAAGGTGATTTTTAAGGAAAGGACCTTAGGTTAAATATGTACAGTACTATGGGGCAGGAGTGGTGTGAAACGAAATGGATACTACGAAATTATTTACTGTGTTTTACCCTAAGTATATGGAGTGACTGTTAAACACAAAATGAGAAATTGTAATCATTTCTAAATAACAATAAAGGTTACAATCATACAGAGGGCGCCTCTAGCTAAGTGCTCACGTAGGTTGATTTTTCTTCACGTTTGAAGAGATTCAATCCATTTGATTTCATTTGAAAAAAAAAAGGACATTCGAGGAAGCCTAGGTTTGTTTAACCACTCTGCAACGGAGACATCTATTGAAACATGTTGTATACTGTAAACGGATATGATGTTTGTCAAACACATACATAATTAAAGATGTAAAAACGTAATAGTTTTTATAAAGATAATGGTACTTTGCCTGGGGGGAAAAAGTTCTCACCACAAAGAAGTCATAAAACTGTAGGAAGATACAGTGTTCACTACACAGCGTATGCATGAATGAAATGTCAGACCTCACATGATACATGTGTGCAAATATCACGCGCCAGTCAACAAAGTATGTGGTGGCTATAAGGTCTATCTGAAAGGAATAGTGTGCTTACATATAAAGGGGAGCGAAGGACGTTCTGGGTCTTTAGTGTACGAGTTCTCTCTTTGTCATAATAATGATTCAATGTGTTTTCTGCAGAATTCACAATGGCCATAAACAAAACTACTCATTAGAAGAATCAGCAAATTAATGCCCTAGTCTATGAACAGTGTGCGTATTCATCCAAGAAATGTTTGACGAGTGTTTAGATTGTCAGTGAATAAAAAACACCAGAACTTTATGCCTAAAGCCATGGACATGTAAATATCAATTCAGACGCCAAGAACCTACTTTAAGAATTGTGCTGGGCTTCCCGTTCCAGAATATAGTAACTGTAGTTTTAAAAACTTTAAAATTATTATTTTTAAAAGGAATGCTTCATCCATTTTATGTATATGAGTACACTAGCTGTCTTCAGAGACCAGAAGAGGGCATCGGATCCCATTACAGATGGTTGGGAGCCACCATGTGGTTGCTGGGAATTGAACTCATGACCTCTGGAAGAGCAGTCGGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCCTAAAATTATTTTTGATGAGCATGATTTTGCTGCTTCTTCCATGCATAGGCGACTGAAGAACAAAGTAAGACCTTGCTTCTATTGATAGATGTTCTGACCCATTGCACACCACCTTCGTTTTCAAATACAGATGAGTGGCAGATACAGCCTTGGGATATCTGAAGAGCCTGAAGAGACTCTATTTAGACCTAACCGGTATTCCACCTTGCATGGTTAAATAAGAAAACACTTTCAGTTTTAAATGGAACAGCTGTCATAACTCTGTCTTGGTGAACATGTTACACGTTACATGTGTACGTGTTACAAAATACACAGATGAAAGGTCTACGGTATGGGCCGAAGAGATGGCTCAGTCATTAAGGGCTTGGGTGGTCCTGCAGAGGATGTGACTTTGATTTCTAGCACTCATATACTTGCTTACAGCCATATGGTAACTACAGTTCCACTGGATCTGACACTGTCTTCTATCCACCAGACACACACATACACGAGGAAACATCACTTATGCACATAAATGAAATGGATCTTTAGAGAACAAAAGGAGAGTCAATTACTTTAAGATGGGAAAACTCAAATGGAATGCAAGCTATATAACAGGTTGAAATTGTTTCAGTTGTTTGTGGTAGAAAACCTCCTGATTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTCCTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCCTTCTTCTTCTTCTTCTCCTCCTTGTCCTCCTCCTCCTGCTCCTCCTCCTCTTCTCCTCCTTCTCTTCCTCTTCCTCCTCCTCCTCTTCCTACTCCCCTCCTCCTCCTCCTCCTCCTCTCTTTCATTACTATCTAG
Seq C2 exon
GAATGGCTTCTCTCATTTCTCCTAATACTGTTGGCATATCAATTATCCTCCAATTTGCATCAAGTTCACGACGCTCCTGAAATGTCTATGATGGATCTGGGACGTGTTGATGACTTTAACGATTCTAATTATATTATTGTGTTTGCTCCTGAGTCTGAAACCACCCATGAGATAATGAACATAGCGGCCTTAGCTCCATTCATGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059326:ENSRNOT00000087502:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(1.0=12.5)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(17.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]