RnoINT0010005 @ rn6
Intron Retention
Gene
ENSRNOG00000015248 | Abca12
Description
ATP binding cassette subfamily A member 12 [Source:RGD Symbol;Acc:1304586]
Coordinates
chr9:78620873-78623692:-
Coord C1 exon
chr9:78623595-78623692
Coord A exon
chr9:78621059-78623594
Coord C2 exon
chr9:78620873-78621058
Length
2536 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
ATTCTCTTACACACTTCTAGCTC
3' ss Score
6.49
Exon sequences
Seq C1 exon
CCACAATACCTCCTAGACCAAGCTATGATTCGGAAGGAATGGGCACAGAAAATTTCAATGGCAGCCAGTTGCTTACACGAATCCTTGATTTGGAAAAG
Seq A exon
GTAACTTCATTTATTTCTGCAATGGACAAACATATTTTACATTAATGGAGGGATCTCCCAAGCAGAAAGGGGTTTACAGAACGTCTCCAGTTTAAGTACTGTCTCGGGCAGGTTCTTTTCTTGGGCACTTTTCAATTATAGCTTAATTTTCAGACATTGCAAATTCCTTAAGGCCTTGGGCATTTATTTACTGCCCTGGTAAGTCCCTTAATTGAACTTACAGTTTTGACTTACTAGGAAATAATGTAGTATTTTATGTGATCTTTCAATTTTATGAAGCAAGGAAATAAAATACGAAGCTGTAAAACTCTGCGTTTGATGCCTCATCCACACTAATACCTTTGGACAAATTGGAGCTATGGAAATCTCTCCCCCAAGTAGAAATATTTTTTTCCTTAACACATTTTAGAGAGTTTACCTATGGAGTTTTCTGTTTCCCAAGATCACCTACTTTATGATTCCTCGGATTGAAAGATAATAAACACACTTTAATAAGAGGTGTGAGCTGGCATCTATAACCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTATGTGTGTATAGAAAATGGATTTGAATAGTTTTAAAGGGAAACAGTTACTCTGCAGTTAACTACATTCTCAATTTCTTGCTATCTTCCAGCCACCTCAGTTAGCTGCATCATCTTGCTTTTCTCTCCCCACCTTGTCTTCTCTCCCCGTTTCTCTCTCACACACTTTATCCATGTAGTGGGCATTTCTCCCATGTGAATCATAAGACATGCCTCTGACATTTATCCCCATTCCAGTAATCCTAGCCACTACTGCTCACTGTGAGATTATTACTGACTCTCGGGTTACCATTGTATGTAATGGAGGCATCTCATTGAACTGAGTCATGTCCTATCAAACTAAATCATATAAATAAACGGAAAGCACAAAAATATATTCCATGAAAGGACACCATAATCAACAATTATGCTGACCCTTCCTGAGCTGGTTGTGATAGAAGACTTTCTTATTATAGTATATATAGTCTAGACATCATAGTATGTATAGTCTAGACATCATAGTATGTATAGTCTAGACATCATTGTATGTATGTTCTAGACATTGAACATTGATATTCTGTCACATCCATGCTTGCTAAGGCTCCTTTGGTGGCCTGGAGTTCCTCAGCATTCCCAATTAATGCCACTCTAAGTCCTCCCCTCACTGGGTCACAAGAAAAATCCGTAGCATTTCATTCTGCTTTCTTCTTGCTTCCTAGAGGGAGTTTGTATCGGATCAGACAACTTCTGTAGTGCATAGAATAGAAACACTGTTCTCAAAATTACTGCTTTACGGTCTTGGAACTTCCAAGTTCTCTTTTTCATATGGGATGGGAGTTTTGAATTTTGTGAGACAGCACAAAGTCACATATCCCAGAGATATAAGCCCCAAGTGAATTTAGTATGTATGGACACATATTTTTAGAGTACTTGGAACAAGGCAGGGATGTAAGAATTAGGATGACATATCGATGGCTGTGTCAGCAATCTCTCTGATTCCTTTCTTTCTCTTTGCTGCTTTCTGCAACCCTTGCAGGAATGAGTAGAGAAATCACTTTGGGGTGAGTTTATGTGTAATGTTAGATCAGGGCTGTGGATGAATGATCAGAAAACCTAGCACTTGCAATGCCTCCCAGATAAGTGGATTCTGTCTTGTTCCATTATACTTAGAAGTTGAGTTGCTGGAGAACAGAGTATAAATTTTATGATGGAAACTTAAGGGAGAATGAAGTTAGCCATTACCTCACAGGGTCATAGGAGTTGGCTACTGGAAGGAAATCCTTGAGTATTACAATTAAATGCAATTAACATTGCAGATGCATAAACTGTTATGCTGATCAATATCGTGGCTGAAGGAGTGTTTCATCTGTGTTTCTTCTGAACTATGGAAAATATCGCCCAGTTACAATAATTTCATTATGAAAAATTATTTCACATTATTGCTTGTTGTAATTAGGTTGGCTTATCTATTTAAATAACATTTTTATATTTTCCTTTTTTATCTTTCTGCAAGGAAATGCAAGCCATCTGCCCCCTTTTGGAATAAGCACAATTGGTGTCAGAGTANATCTNGNAGCATTCTTTTGAGGTCTTCCAAAATTATGACCATTTTACAAGAAACAACACAGAGTTAATGCACTTGAGCTTATGCCACACAAAGCCCCCCCGAAAATTGATACGGTTTTTATTCACAAAGACTTTTTTTTATCAGACAACATTGGGTGCTTTTATGTTCTCTGGCAAAACATAAGAAGTAGGTTCAGTTATACAAATGAAATGTGAACCATTTAAATCAAAAGCATGATGAGAATTTATACCTTCCTGTGTGTGCTTCCTCTACAGCTCCACAGAGGCAAAACTGTGTATTATTGTTTCGAAAGGCAGAACTTTAAACCTCGCTGTTGTAAAGATAAGCCAGTGGCCTTAAAGATAAAAATCTTTTCCTATTTATATTTTCTAATATCACTTCCCAATTCTCTTACACACTTCTAG
Seq C2 exon
CTCTTGAAGCAAAATTCAACTCCAGAAGACATACGAAGAGAGCTGTGCGAGAGTTACCCTGGGTACACTGCGGACTACGCCTTCTCTTGGGTCACTCTAGGAAAAAATGTTTTCAACAAATTTTGCCTTTCAAACATGACACTTTTAGAGTCTTCTCTCCAGGAACTAAAATATCAGGTCTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015248:ENSRNOT00000036359:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.515 A=NA C2=0.065
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146371=FNIP_M=PU(25.0=51.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
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]