RnoINT0010040 @ rn6
Intron Retention
Gene
ENSRNOG00000025645 | Abca13
Description
ATP binding cassette subfamily A member 13 [Source:RGD Symbol;Acc:1305895]
Coordinates
chr14:89619349-89621735:+
Coord C1 exon
chr14:89619349-89619529
Coord A exon
chr14:89619530-89621516
Coord C2 exon
chr14:89621517-89621735
Length
1987 bp
Sequences
Splice sites
5' ss Seq
CATGTGGGT
5' ss Score
2.93
3' ss Seq
CTGATCTTTGTTCTCTGTAGATC
3' ss Score
10.79
Exon sequences
Seq C1 exon
GGCTCTCACAGCAAAATGGCCCAGGAGAGATGGAAGGAGGGAGCCCAGGAGTGGCTCTGATATCTGTGACCAAGGAGTATGAAGACCACAAGGTGGCTGTCCAGGAACTCACTCTCACCTTCCACAGAGACCAGATCACAGCCCTGCTGGGGACCAATGGCGCAGGGAAAACCACCATCAT
Seq A exon
GTGGGTCCCATTTTAGAGAATTTATTTCCCTTTTCCCCTTCCTTCCTCTTTCTCTTTTCCCCTTCATCCTTTCTCTTTTTTGCTTCTTCCATTTTTATATTTCCATTGTTGTTTTGCTTTGATCTCAACATAGAGCTTGAAGATTCAAAAGAAAGCACAAGTCTCTCTCCAAAGCCCCTCCCCCAGTAGCCCTCAATCATGTTTTAGACCTGGAGTAGATTCAAGTAGAGAGGTGAACGGATATCTTTTAATGTCTCAACGTTTTATTTTCTACAAAATAATACATCATGTTTTCCTTTAATCTTTTGAAGTCCTTTGATACCTACTGAAGTATGACTTTGTTTGAATAATTATAGGAAAAAAAGCAGAGAAAAGCATTGCGAGCTTTAAGAATTTTTCTTTTTCTTTTTTCATCTTTTCCCTTTGGCGCTTTCCGTGCTAAATTCTGGATTTTGAATTTGGATCCAATAGTTTCAGACTTGATTAAAGAATTCGATCATGTAGCCCTGGAGGAGGAAAAAAATGTTTAAATATCCAAAGCCAAAACCTTGAACTGGTCGTGGCACAGTGCCTTTATTTAAGGCTAACTGCCAAAATTATGGAGTGTATCTTTTGAGCAAATCACTTCTTATTCTTTTTTTCACCAAATGTGCACAGGTATAACATATGATTAGTAAGAAGGATGCGAAGGAGGTGGCCTCAACCTTAGTACAAAAGGCAGAAAAATGATGTCTGTGGAGCTCCAGCGAACTCTCCTTGGAAATGAATCAAGGGAAGAGAGCATGGAATGTTTGCATTTGTACCTTGCAGGCTGAAATAGAGCTGGCAGTCTCTCCTTTCTAGAACTTGCAAATTGGGAATGGCTGAGTTATGCAAGCAGTAACTCAGCAAACCTTTGCTAGCACACGGATTTTATGAGGAAAGCTTGGCGTGCTCGTCTGGCTGATGATGAGAATCAAATAAGAAGGTTCTGGGTGTTTCAGGGTTCAGTAACTACTTGGCTTTCAGTGACATTTGGAGTACGTTTGGAGTTATCTGAAGTGCTTCCTTCTTGCTTACTGGCAGCGCTTGGAACCTGAGAGCCAAGTGCTAAACTGGATCTTTACCATTTGAAATGAAAGGCCTTTGAGAATCATAGAGAGTTGATACAGTTGAATCTCTGTGTCCACGGATTCTATTTCCGAGGATTTGCCTAGCATAGATCAAAACTACGTAAAAAGTATTGCATCGGTCCTACATATGTAGAGATATTATTTTCTTGTCGGTATTTGGTCAACAATATAATATATAGACAATTTAAAGTACACAGAAAGATTATATAGACTGTACGCATGCTGTCGTTTTTATACAATGAACTGCAGTATCTGAATTTTGGTATAAGTGGGTTGTACCGGATCCAACTTCCAAGGATACTGAGAGATCTCCACATTTATTACCTTATTATATTCCTTAAATAGGTTTGGAAATAGTTATAACAGAGTTGTTAATTGAAATTTCAAGGCATAATTTTTGTGCCACATGGTTATATGGGTAGTTCAGTGAGGGTTGACATACTTATCTAATGTCAGAGCAAACACCACATTGAAGAAATGGAACCTTTCTTTTCCCTTTCAATATTTTTTGTGTCATCTTTTGGCGCTAGCTCCCAAGTGGCCACTGACCTACTATATGCTATCTCTTATTCTCAAATTCCATATACATGAAATCGTGTCTACACTATTTTACCTACACCATCACCCAAGTCTGTCTCACTGTGAGAAATACAATCACGCTTTTTCCCCTGGGAGGCAGGGCACATTCATATGCCCACCTTTCATAGTGGGACACTCCAACATCCCCATGAATTCCCACATTTTAACTGACTGTGTGGAAAGCAGCTCAGCAGGGGTGAGTTCCTCTTAGGCTGCATAAAAGGAACTGGGATCCAGGGGCTCATTGATGTTCACAGCATCCGGGCGATGTTTATGCTGATCTTTGTTCTCTGTAG
Seq C2 exon
ATCCATGTTGATGGGCCTCTTTCCTCCTACTTCTGGAACCATCATCGTAAATGGCAAGAACCTGCAGACAGACTTCTCTAAGGTCAGAGAGGAGCTGGGGGTGTGTCCACAGCACGATGTTCTCCTGGACAATCTCACTGTGAGGGAGCACCTAATGCTCTTTGCCTCCATAAAAGCACCTTGGTGGACCAACAAGGAGCTACGGCAGCAAGTCAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025645:ENSRNOT00000035612:37
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.131 A=NA C2=0.014
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(18.4=44.3)
A:
NA
C2:
PF0000522=ABC_tran=FE(49.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCAGGAGTGGCTCTGATAT
R:
CGTAGCTCCTTGTTGGTCCAC
Band lengths:
343-2330
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]