RnoINT0010268 @ rn6
Intron Retention
Gene
ENSRNOG00000012892 | Abca4
Description
ATP binding cassette subfamily A member 4 [Source:RGD Symbol;Acc:1309445]
Coordinates
chr2:225781584-225783287:+
Coord C1 exon
chr2:225781584-225781670
Coord A exon
chr2:225781671-225782955
Coord C2 exon
chr2:225782956-225783287
Length
1285 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
GTGTTGTTTTTCCCTTGTAGCTG
3' ss Score
11.39
Exon sequences
Seq C1 exon
GTATTTGTAAACTTCGCCAAACAGCAGACTGAGACCTATGACCTCCCTCTGCACCCTCGGGCTGCCGGAGCCAGCTGGCAAGCCAAG
Seq A exon
GTATTTCTATTGCTCTCTCCCAACCACTGCTTAGGAAGGGCCTTAGCTCAGGGACCTCGCTGACTAATTGGACCTGAGGTGTTCCTAGGCTCTCGTGAGGCTCTGCAAAGAGCCCGCCCAAGCCACGTCTCCACCTGCCCATATCATACCCACAATCCTCCATGCTTGGCCTCAGGTGGTCCCAGCTGTTCTCTATTAGGAACCGGTCTCAGTCGAACACTATGGGAAATGAAGTTTTCACATCCCTTCTCTTCTGAAAACAGATCTCAGAGTCTGTTTCAGGCCTACCTTTAATTGTTGACTTCTTCCTGGTGGTGCCAATGGCACACTCTTTTAATCCTAGTACCCAGGAGGCAGAGGTGGGGGATTTCTGTGAGTTTGAGGTCAGCCTGGTCTATAGAGTGAGTTTCAAGACAGCCAGGGCTATACAGAGAAAGCCTGTCTTGGGGTGGAGGTGGAGTCGGGTGGGTTTGTGTGTTTAAACCAGATCATTGGACAAGCCACATTTTGCATAGACTGAAAAGGCCCATCTCCAGCCCTCTCCTTCCCCGCCCCAAAGCTGATATTGGATCAGGAAGGTAGCCTACAATTTATGATTGGAGATTATATGTCTCTAGCTAGAAAGCTTGTTAGAAAAATGCTTAATGCACAAGTTTGATCTAGATTCATTATCATGAAATATATATATATATATATATATATATATATATATATATATATATATATATATGAGAGTCAACTGGCATTCATATATCCCCAGTCAAATAAAATGACCCTTCTTCCTAGGAGCCAGCTCTGAACAAACTGGACAAAGAGAAGTCTAGACTCAGGGCTAAACTCAAGTTATAATTTCTTGGCTTTTAAGCCAGCAAGGTTACTTGCAAGGTTAAAAAAAACACCCAGGTCTCGAGATTTAGCTCAATGGTATAAGCCCTGGTCTAATACAAGGGCCTAGGTTGGATGCCCAGCATGGGAGTGGGGAACATAGTCTCCAAAACATCCATTGGAAAGAGTACCAAGGGTGTAGCCTTCTTATAAGATGTAAACACACACTGGCATGTAAGTCTCTGTAATAATTCCATAGAACTTAGATTCACAGTTAAGAAATCAGGCAGCCTACTTGGTGTTCTGATATGATCCCAGGTGCTTCAGCTAAGCGCCCTCCAGAAACTGCCAGTGGTTACTCTTTTAGACCTAAAAATTTATTGCTCCAAAACCCAGGATGAGAAATGCCCAGGGATCTCGTACAGGTCTGATTTCCTTCTGTGTTGTTTTTCCCTTGTAG
Seq C2 exon
CTGGAAGGGAAATCCGGACGGCTAGAGACACAGGAGCCTTTACCCGCTGGATCATCTGAACACCTGGCTAACATAAACAACCCCACTGCAGTAGCAGATAATAAGCACACGAGGAGTCCGCAGTGAGCTGGAGGAAACCAAAATATTCACCGGCTCACCCGAACTCCCGATGGCAAAACTGGAACACAGTCACCTTTTCATCCAGACCCCTGACTAGTGGCTTTGGCCTTAGCGATTATTTTCATTCTGAGTGGATCTACTTTTGTGGAGTGGGAGGGGTATGGATGTGTGGGTGTTATTTGGGAGGAAGAATAAAAAGCAGCTTCCTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012892:ENSRNOT00000017878:49
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.379 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTATGACCTCCCTCTGCAC
R:
CACATCCATACCCCTCCCACT
Band lengths:
343-1628
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]