RnoINT0009945 @ rn6
Intron Retention
Gene
ENSRNOG00000018126 | Abca1
Description
ATP binding cassette subfamily A member 1 [Source:RGD Symbol;Acc:631344]
Coordinates
chr5:69908824-69912900:-
Coord C1 exon
chr5:69912784-69912900
Coord A exon
chr5:69909022-69912783
Coord C2 exon
chr5:69908824-69909021
Length
3762 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
TTTCCTTCCTGGAATGGCAGACG
3' ss Score
4.53
Exon sequences
Seq C1 exon
GTGAACAAGACCTTTCAGGAGCTGGCTTTGTTCCATGACCTGGAGGGCATGTGGGAAGAACTCAGCCCCCAAATTTGGACCTTCATGGAGAGCAGCCAAGAGATGGACCTTGTGCGG
Seq A exon
GTGAGCGACTCTCTACTTGCTTTGTGTGCTTGATCTAGAAAAGGTTTCTGGACATCTTCCCAGAAATCCCTGAGATAAAAGTTCTGTACGTTAAAGCAATTGAGATTAGCTGAAGCCACATAGCCGCTGCTTCTGTAGAAGTAAAGGCCTCGGTGTAGTGATAGCCCTGGATATGCCTGCATCGATATCCCTCATGGTTCAGTAGGAGCTTTGCACAAAACCCAGTGAAGATCAGAAATTGGAAGTAGAGTTTGGTGCTTGCAGGACACCTGAGTATTTTCTTTTCTTTTCTTTTTTTTAAAAAAGATTTATTTTATTATATATGAGTACACTGTCACTGTCTTCTGCCACACCAGAAGAGGGCATTGGATCCCATTACAGATGGTTGTGAGCCACCACATGGTTGCTGGGATTTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTTTTAACCGCTGAGCCATCTCTCCAGCCCCCCGAGTATTTTCATTTGGGCTTCAGTCACTCGGCTAGGCACCCCGTATCTTCTTTATCCTGCCATGTCTCAGGAGGAGGGAGCAGAAGCGTGATCTGGCATGCAGACAGGTCAGGCAGACTGGCTCTTCAGGCACAGCAAGAATACAGCACCCCAGCCACTGCCGTGGAGTGGAGGGAATTGCCCTTAACACGTGGGGGCCACTTGTGCATACTCCAGACACAACGAGGTTCAAAGGGAGAGCAGCCTGAACATTCAGTGTCTCCTCTGCATCAGCGGGAGAACCATTTAACCGCCTCATCTCTGCGTCAGCTTCAGCCAGGGTCATTAGACAACTTCCTATTGCCACGGTGAGGAAGACCACTTGCTTTTATTTCTTCTGCCATTAAGAAGCAAGGGAGGATGTTTGCCTGGTTTCTGGAATTGAACCTTTGTTCCCTGAAGGTTACTGGGTTTTTAGAGGCTGTGCTTCTTTGGAGTTTAGGGGTGCTCTGGGTCCCCTTGGGGGACAAGTTAATGATCAAAGAGCATCTGGAGATGAAGGACGGAGCCTCTTTTGATTACATCAGTGCTGTTACACCCGTGGAGAATCCTTAACTTGGAGCCTTTGTACACACGGGGCTTGGGTGAGAAAATCAAGAGCAAAGTCTTATGCATTCAGGGCGAGTCATGGCACAAGTTGACACTGGTGGTACATTGTTCTCCCTTGAGCTCCAGTCTTTCTGTTCTGAGAGATTTGTGGGATCCTACCACAGGACGCATGGCAACGTGTACCCTAGGCCTTGTTTCCTTGGCATCTATATTTCTACTTCTTGAACTTGTTCTTTGTCTGACAGTAAAGGGATTTAAGAGAATTTTAATTGAATTGGGCATATGTAGATGTTTCCCTACTCTTTTTTTTTAAAACAAACAAACAAACAACAACAAGGACAACAAAAGCAGGGTCTCACCGTGTAGCTTAGACTTGTCTGCAACTGACTATATATATGCCCAGGATGACCTCAGACTCATGGCCATTCCCCTGTTTCAGCTTCCCCCAGAGCTGGAATTCCAGATACCAACCACCATGCCTGGCCTTCGCTGCTTTTAAATCAAGGGTTTGCTTTGGAGGCTACAATTGCTCAACTCTTGGTTCTTAAGGGACAAGTCCTTATAAGGGAGCATTCACTAGGGATTCACTAGGGAGAATGCTGACAGTGTAGTCAACGTAAAGCAGCAAAGACGGGAAGGAAAGGCCTGGGGTGGGGGCTGTAAAGATCTTTACATTCAGAGGGGGTCAGCAGATGGTTTTAAGCAAGTGGAGATGTAGATGCAGTATTCTAGAAGAAAGATGGGTGCAAGGCAGAGACTGACCTCGTCAGAGACTGAATGGCTCAGTAGCAAGGGCTGAGCACAGAAGAGGGGGCGTGGCTGCAACTGTGGTAGAAAGGCAAGGAGAAAAAGGTACAGGAGAGTCTTGACTTTTACCTGGACTGGCAGGGGCTATCGAGAGACCAACAGAATGGTGGTTCTTGGGGTCTGCAATACAGAAGGATGATTGGCCTGGGGACAATGGTAAGGAATTGCCACCTCGTCGGTGGAAACCAGAGAAGCTTTACCCCATCCTTTCTTCCCTGACCCGAGGAGTATTACTTTAACCCACCACCTTGGGTTTCTCAGTCCTCAGCATCTTGGTACCTGGCACATAGATGATGCCCACTTTGCTGCCGTATGCTCTCATCTCCCTGTTGCTTCTGGTTTTATCAGCTCTTATTGTACCCCCTCCAGATCTGGAGACACTTTTCTATTATGTGTAAGAACCCCCTGACCTAACCCGCTTTAAAAAAAAATTGTTTTGAACTGGACCTGGTGCTTCATCTCCAGGCCTTGCTTTCTCGCTGTCTAGCATTTTATGTGAAACGTTAGGTCTCCCATTCCTTTTCGGCTTTCTAGAGGTGCTGTAGAGTCCATGGTCTCACTGGGCACCGCCTCTTGGTCTGGCTGTTCTCTTTCCATAGTGCTGAGACGCCACGCTGGGCAGGACCCAGCCCAATGACACCATCCCTCTTCTCTGATCTTACTTGTTCTTTACTTCCAAGGATCCAAATAAAGTAGTTTTGGAATTGGTAACCTCCATGGACTCTTGCGAGGTACAGTTTTTGCATCCATTGACAAAAATAAAATAAAATAAAATAAAATTGTACTGGTCCCTCATTGGTGACAGGGGTCATTGTTTTATCCCCTCATGGAAAGCGCTTTGAAATGGGAGTTTCGAAACCCACTTAGAATGAATGTGTCCTTTGTTGTACCTTTGCTTCACACACATCCCCGGGGATGCGTCCTACATCATGGGAGAGAAAACGTTATTACTGAAATAATTGTTATTGTAAGTAATTGGAAATAGACTAGATGCTATGCAGTGCAGGAGTAGTTAATGAAATTGTGGTAGACGCACTCTGTGAAATCATTATGTTACCATTAAAACAGCAAAGAGGAAGCCACCTAGGGGGAAAGCTTGCAAGGTTGGTGAAGAGAAGACGGATGAAGGAGGTGTGGGTTTCAGGCTTTTGGAGATCCTGCTCAGTAGAGCAAGGGCCTCCCCCTCCCCCTGGAAACTGGGAAGTGAGCATGGTGGCTGTGTTTCCATTCTGCCCAGTCAGCAGTGGGCTCGCTTTCTCAGCAGTGCATTTGTGAAGACTTTTACCCCAGTCCCCCTGGACTGGTTGGTTGAGGGACAGAATGGCTTACCCTTTTCACATTGATGGGTGATGGGAAACAGGTCTTCTTTTCTTCGTATCATCCCCGTGTCCTGGAGTTAGGAAGACCATCTTATATTTGGATTAACCAGCAGTGTTACCTCCCTGAACTAAGCATTAAAAGTGGGCTCGGTCTAGAGACAGGGGCTTTATTTGGCACCATCAAAGAGAGGCGGGTGCCGTGCAGTGGGTGTGCTGGAATCAACGCCCACTTTCCTGCTCCTGAGCTACCTTAACGTCCCGGAAGTTCCATTTTCCTGTTCGTGAGAGGGGCAGTACCAAAGCCACACTCTGATGGAGTTGTGTAAGTTCTGATGCCTATAGATCCCTCAGCACCCTACTATTGCTCTTGTTAGAGTTGAAACAGTTAACGTGAGCTGTCTGGTGCAGTGGGAAGCCTGTGAACTTCAAAGTCAGCGGTCTGACTTTGTGTCTCAGCTCATCCCTTAGCCTTGGTCAACATCAATCATGTCAGACTCCAATCTTGGTCAAATGTGCTCGTTACCACGAACCTGATGATCAGTGTTCACATTTCCTTCCTGGAATGGCAG
Seq C2 exon
ACGATGTTGGACAGCAGAGGCAATGACCAGTTTTGGGAACGAAAGTTGGATGGATTAGATTGGACTGCCCAAGACATCATGGCATTTCTGGCCAAGAACCCAGAGGATGTTCAGTCCCCAAATGGCTCTGTGTATACATGGAGAGAAGCTTTCAATGAGACCAACCAGGCAATCCAGACGATATCTCGATTCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018126:ENSRNOT00000024564:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(8.6=97.4)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(14.7=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:
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]