RnoINT0010284 @ rn6
Intron Retention
Gene
ENSRNOG00000004378 | Abca5
Description
ATP binding cassette subfamily A member 5 [Source:RGD Symbol;Acc:628661]
Coordinates
chr10:98604648-98606584:-
Coord C1 exon
chr10:98606383-98606584
Coord A exon
chr10:98604818-98606382
Coord C2 exon
chr10:98604648-98604817
Length
1565 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
ATATTATTTTTTCCTTTCAGGTT
3' ss Score
12.75
Exon sequences
Seq C1 exon
ATTATAGTGTATTTACCCAGCAGCCACGGGAGGAAGAAACAGATTCAAAGTCTTTTGATGAAATGGAACAGAGTTTACTTATTCTCTCTGAAACCAAAGCTTCTCTAGTGAGCACCATGAGTCTCTGGAAGCAGCAAGTATCTACAATAGCAAAGTTTCATTTCCTCTCACTGAAGCGAGAAAGCAAATCAGTGCGCTCTGT
Seq A exon
GTGAGTATAATTACCATTCTCCTCGGAAGGCCTGTCTTTCTGAGGTTGCAAATAGAATTTGCTCTCCAAACATTTAAATAATGACACGTACACAGCTTTGTACTCCTGAAAGATTACATGACAGTTTGACAGTCACAGTAACTTTATCACACATCCATGGTACTTTCACCTTTTCATTCTTATCATGTCTCTCTGTCTTCTATCTGTCTGTCTGTCTGAGACAGAGTCTCACTGTGTAGCACTGGCTGGCTTCCTCCACCTGTCTCTCTCTGCCTCCTAGATGCTGGGATGAAAGATGTGTGCTTTTATGTCAAGCTCTACCCGTTTTTCCTAAACTGGTATTGTCTCATCTCTAAAATCATGAAGTAACAAGTAATATTATCTAATGTCTAGTTTTTGAGTTATTGTCAGTACATCTAAATTTTTATTTTGAATTTAAATAATTTCATAATGTTTCTATCCATTAAGCTTTACAACTGTTTTTAGTAAATAGCAAGAAAGTTAAATTTATCCCTCTTTATTAGATGAAGAAAGTTGAACCATAAAGTTCTATAGCTAGTGAACCTAGGATGTAAAGAATTCTCCAGATCATTTAGTCTCCCAGTTCATATCTCTTCTCCTCAGCTCAGAATGACTGATGGAAAGTAGCATCCTGCTACATGTACCACGTGTCTCTCTTTTTAGAACTAGAATGATTGTAGGAATAAAATTTTATAAGAAGAACATTCATACATATCTGAAACATTCTGGAGTTACTTGAGGTTTTGACCAAGTTCATTTAGTGAAAAACAAATGCTAGTCAGGTATCTGATTGTTTCTATGTAAGTTGTCCTGAAAAAGTTTTAAGTCAGTGTGTTTTAATTTATTTAGTTGAACATCATTTTGCTAAAGCATTTTCTGAAAACCAATAAAAGTGGGTAATACGGTAATGTGTGTGTATATGTATATGTGTTGACAGTATATTATATGATAGAGATTGACAGCATCTCAGTGGAGTAGTAGCAGCCAGTGTAATCGCACTGTGGTAAGGATGACTGTTTTCACTGTAGCCCTGTCCCTGGGTCCGATGCTTGTCCCAGCCCTGATGTGGCACTTTCTCCTGCATAGATCAGTGGCACGAGCATTCATGGCCGTACCGCATTCCTTAGCAGTGACGCTTATATGTAGTTTAAGAGTAAATTTAGGGGTTAGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAAGCGCAAGGCCCTGGGTTAGGTCCCCAGCTCCAAAAAAAGAAAAAAGAAAAAGAGAAAAAGGAAAAAAAAGAGTAAATCTAGTCTATATGTACTTTTCTAACTTTTCCTTCTCTACCTCAAATTTAATAACCTTTACATTTGATATTGCATTTCGTTTCCTCTCCAATATTATTATCAGGCCATTTTTGGTAAATTTTTAGGAAGGTTTTATTTTTCTTTGCTTTTTGTTCTTGTTTTGTGGTTTTGCAATTGAGTATTGAATCGATACTAACGTGAGGGAAGATAGCTAATAGATTTATATGTTGATGTATATTAAGCTATATTATTTTTTCCTTTCAG
Seq C2 exon
GTTGCTTCTGCTTTTAATTTTTTTTGCAGTTCAGATTTTTATGTTTTTGGTCCATCATTCTTTTAAAAATGCTGTGGTTCCCATCAAGCTCGTTCCAGACTTGTATTTTCTAAAACCTGGAGATAAACCTCATAAATACAAAACAAGCCTGCTGCTTCAAAATTCTACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004378:ENSRNOT00000005848:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.074 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(1.4=7.4)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(15.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTATTTACCCAGCAGCCACG
R:
GCAGCAGGCTTGTTTTGTATT
Band lengths:
350-1915
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]