RnoINT0010263 @ rn6
Intron Retention
Gene
ENSRNOG00000012892 | Abca4
Description
ATP binding cassette subfamily A member 4 [Source:RGD Symbol;Acc:1309445]
Coordinates
chr2:225772111-225775689:+
Coord C1 exon
chr2:225772111-225772252
Coord A exon
chr2:225772253-225775554
Coord C2 exon
chr2:225775555-225775689
Length
3302 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAA
5' ss Score
4.51
3' ss Seq
CGTTTCTTCTCTTTTCCTAGGTT
3' ss Score
11.09
Exon sequences
Seq C1 exon
CATTTTAACTAATATTTCTGATGTTCATCAAAACATGGGCTACTGTCCTCAATTCGATGCAATTGATGACCTACTCACAGGCCGGGAACATCTCTACCTCTATGCCAGGCTGCGGGGTGTGCCATCGAAGGAAATTGAGAAG
Seq A exon
GTGAAAAACAGTTTGTTGTGGCCACGTGGGGGGTTGGCAAACTATCTGCCTACTTTATGGAATGCAATCATTTAGAAACAGAAAACTGGGCACACTATCCACCCATTCCAGTAAATGGCCACGTCTACTATGTGCCAAGTCCTCCCCTAGAAGCCAGACATGGCAGCCATCAAAATGAACACATGCACAGTAAACTCTTGCCCTGGAGTCTATCTGGTGATACATACATTTGTCCTATAACCCATCTGTCAGTAAGGATGAAATTTAAAAGTGGCAGTTTTCTTTTCTAACCCAGCTAGTTCCCAAATAATTAAGATAGAAACTTACACATTTACTCAAGAGGTTCTAAGCACAGTAGCTGAGCAGATATTTATAACCCTCTATGGTACCTGGCTATTTCCCAGCCTCATGCCCAAGTTAGTTGCATTCAGTCTCTCCTTAGCTTGCTCTGCTGTAGTTGTCTGTGCTCATGGAGAACTCACTTGGTGACCATTGGTGACCGTCTTCTTCCTTCACCTGCCTCATGGCTCTTCTTCTGGACACTCGTCTACTTCATGGTGGACTCCTTCTCCCTGACTCTTCTCCTTGGTCCCCTAGCTGGGATCAGAAGTCCAGCCTTCCTATCTCCTCTGCCCAGTCATTGGCTGTTCAGCCTTTACTAACCAATCAGAGATAATTGAGGAACATCGTTTAGGCCACCTTGATGCAGGAGATTCTTCAATATTCATAATAATGCCCTCATCCATGCCAGATCTCAGGGCACAGAAATCAGTATCTGCATTCACTGTGTACAAGAACCAACAAATCAGCATTCTGGAGATTTAGCCTGACGATCCACATCACAGTACAAAATGCTTATGCACAAGGTTACTCATTCCACTTGGGATTGCAAAGTGCCTGACATCACCTAAATGTTTAGACGTAGTCAACTGGATGATACATGTGACATTCTGATGCTGCTCCAGGAAGAGAAGAAGGATGGCCTCTGCAGCCTGTTATGGACTTATTGTCAGAGTTATTTCTAGTATTACTGTGTGAGAACACGCAAGGTGTGAAGGTGAATATGTGGGACGCTGCTTTTATGTAAGAAATAGGAAAACAAGAGGTGGACGTGCAGGTGCTTAGCTTTACCGATAGAACCTCCGAGGGGTAAACCAGCACACCAGACAACAATGATTATGATATTAAGAGGAAATTGGGGTGAAGGGCAGATGGGAGGGAGTAATGGTTCTCTGAGGTTATCCTTTTGTTTAGCTTTGACTCATACAGGTGCGTGTATGTTCTACAGATTCAGAACTAAGACTGCATCAGTAAGAATAAGACTGGAGATTAAAAAGTAGAAAGAGAGAGAGAAAGCCTGACAGTCAATATAAGTGGAAATAAATTACTCTGTTTTAAATAATCCTGCAGATAGTAGGGTATTTATCCTTAGTCGTGGGCAAGGTAGAGTGGGACAAAGCGCTTCACTGTCTGAGCTATTGTTTTAGACTCCATATTGCAATAATAGAAACCCTAAGTTAGACACCATATTGAAGACTGCAGTCATCAACAGACAGTCAGGGAAGTTTGCAGATGAGAAATTAAATAGTTTATGTAGTCTAAAATAGCACCTGTATAAGTTGCTTATTGGTTTCCAAGTAGGTATGTAATTTTTCAGTAAAAACTTAGATGACATGTCAATTAGAGGAACAAAATGAATGTCATGTAGAATGCTCCCAGATATGATACCCTGGAAGGCCACAACTTCACAAGAATTCTGACTGACAGCGTACAGCCCGAGTCTTACTAAAAAGAATCAGACAAAATCTAAAGAAATAACATTCCTTTTAAAGGAAGGTGAGAAAGAGGGATTGTGTGCTTTGAATATCAAAGTCTGTGGAAATGTCCCTGATCACAGGGTGCTAAAGAAACACAACGAGGGCTACAAACATGACTACATGAGTAAAACACTCATGCAAACAGAGGCCTGAGTTTGAATGCCCAGATCTAGATAAAGTCAGGTGTGGTGGTGCATGTCTGTAAACGCAGCGCTCCTAACGGGCAGATGGGAGGGGAGCGGGAGAATGCTCCAAGCTCACTGGCCACCTAGCCTGTCATATATAGCAGTGAAAAGTTAAGAGACCCTGTCTCAAACAAAGAGGAAGGGGAGGAACATCTTTCAAGGTTGTCTCCTGTCCATCACATGTGTGCTGAGGCAAATGTGAACTAGGCTGGTGCATGACACTCCCACACACATGTACACATTGGGGCTGGGGGATGGCACTTGAAACCATTTCCAAATCACAAGTTTAAAATGAAGACTGCATCCTAGAGGTAGGATAACAACAGATTAAGTAAAATATTCAGTGACTTAGAGAGCGGCAAGTTCTGAGAGGAAAATTAAGCAGAAGACGATTGTTGGGAAGAGGTTTGTGTTTGTCCATAGAGTGGCTGGTTCAGGTAAAGGCTCACAGGAAGCGAGGAAGGTGCACAGGAAGTGACATCTAAGTATAGGGCTAAAGAAGGGAAGTGAATCACAGAGCTGCCTTCAGGGTGAGCATGTCTCAGAACATTTTGAGTATGTTCCTGGGTATGAATACGGGCACGTGTTTGTGCTTACCCACACACGCACACTTGCATGCACACACACACACATGCACTCACAAATCCTCAGTTCCCCGTTGGGGTCCCTCAACACATGGTTCCAGTCCATCATCTATTTTGTTTAAAATAAAAATCTGTCGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAAGCGCAAGGCCCTGGGTTTGGTCCCCAGCTCCGAAAAATAGAAAAGAAAAAAAAATAAATAAAAAAAATCTGTCACCTCTGACCTGGGAAGTATAACAGCAATGGCAGCATACCACACTGTTCACCCCACCACAGTGCCTACTACAGTGCCTGCCTGGCTCATGCTGGATGCTCTGCAAACATTCATTAGATGCACAAGAAGGTTACAAACCTGTCCCTGCTAGGGGGGATAGAGCCAATGGGTTTGGGGTGCACTGTATTCTCAAAGAGACCTTGGTGAGAAACGAAGTCTTTGGAAGGCTGCAGGTTCTTTCCAAGAGGGCTGCAGAACTCAGGAAGCCACCTTAGTGAAACCAAAGGTCAAGGGTAGAAAAACTACCTTAAAGTATGTGCTGGTGGATAGCAGCCAGCAGATGGCCCTGCCACACAGATCTCTGTCCAGCAGGATGACATCTGGGAACATAGCCTTGAGCAGTGCCCGTTCCTGGGGCCTTCCTTGTTCATCAGCCACCAGCTGACGTTTCTTCTCTTTTCCTAG
Seq C2 exon
GTTGCCAACTGGGGCATCCAAAGCCTGGGCTTGTCTCTCTACGCTGACCGCCTAGCGGGCACCTACAGTGGAGGCAATAAGAGGAAACTCTCCACGGCCATAGCACTCACCGGCTGCCCGCCCCTGCTGCTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012892:ENSRNOT00000017878:44
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:
PF0000522=ABC_tran=FE(32.4=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(30.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]