RnoINT0010240 @ rn6
Intron Retention
Gene
ENSRNOG00000012892 | Abca4
Description
ATP binding cassette subfamily A member 4 [Source:RGD Symbol;Acc:1309445]
Coordinates
chr2:225732199-225733565:+
Coord C1 exon
chr2:225732199-225732392
Coord A exon
chr2:225732393-225733480
Coord C2 exon
chr2:225733481-225733565
Length
1088 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCGT
5' ss Score
8.42
3' ss Seq
TTTCTGTCCATCTGTTGCAGGGG
3' ss Score
10.24
Exon sequences
Seq C1 exon
GTAGAACCATCATCATGTCCACTCACCACATGGATGAGGCAGACCTCCTTGGTGACCGCATTGCCATCATTTCTCAGGGAAGGCTCTACTGCTCTGGGACGCCACTCTTCCTGAAGAACTGCTTTGGCACAGGCTTCTACTTGACCTTAGTTCGCAAGATGAAAAACATCCAGAGCCAAAGATGTGGCTGTGAG
Seq A exon
GTGCGTGTCTGTCCAGGGAAGGAGCCTAGCTTGGGCGAGAAGGGACAGGCGCTGTAGGGCTGCTGTTCCAGGTAGAACTGCCCACCGGACCTTTAATTGTTGGAATCAGCTTCTTTCTGGACTATTTGCAGATCTCAGTAATTGTGTTCCAAACTACCATACAGAGATAACCAGCGGGGCTGGGAGTAATGTGGTATACCAGGGGAGCGCCTTGCCCTTTGAGCTTTAGTACAGCTCCCCCGGCCCCCGGCCACCCCCCCCCCCCGCCACTGGGGACCGAACCCAGGACCTTGTGCTTCCTAGGTAATCACTCTACCACTGAGCCAAATCCCCAACCCCAAGACAGCTTTATTTAAGCTGTTTCTCCTCCATCCAAACATTCACGCTCCCCAGTTAAACCTGAATTCCAGGAGTGGATGAAATCTAACGACAGATATCCTTGGAGACTAGAACCTAAAACTTGTGTGGGGGTGAGGACAACCACTGGGCCTGTCCTTAGAACCAGGGTTAGTCTCCTGTGTCAGCCCGAGCAAGTGATTTTATTCTGTGCTGTTGTTGTCTTTCCTCGAGTGGGAAATGAAGCAGATGACACTGGCTTCTGCTTCGTAGGGATGTGGTGGAGACCAATGAGATGGAGCCTTGTGTTTCCTGGGCTCCTTGAGAACAGGTATCCCGGGCATTCAGGCTGTCAGGAATGTTCTGGTGCAATGCTATTCATGCCTCCAGTGTAAATGGATACTGTGGGTTTTCCTGTCCTGGTGGGTTTTCACAGCCTGGTGTCCAGAGGGGTTGGGAGGGGAGCGGAATGTCTCTCCAAGTGCTACGTGACTAATGACAAGGCATGGGATGCTTTGAGGTTCTGCCTCTCTCTCTGCTGACTCACACTCCTTCTGGGATAAAAAGTCAAGCAAGCTCCACCCTCAAAATGCTCAGATGAATTGATAGATTAAACAGTGAAGAAAAAACAGTGTCATCCGCAGCTGCTGATGAGAGACAGACGGGGCGGTGGTGACAGCAATTGGCACGGTGAAGATGCTATCATTGACGTGATCTGTATCTCGTCAGCCCTTTCTGTCCATCTGTTGCAG
Seq C2 exon
GGGGCCTGCAGCTGTACATCAAAGGGTTTCTCTGCCAGGTGTCCAGCCCGAGTCGATGAGATAACGGAAGAACAAGTCTTGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012892:ENSRNOT00000017878:23
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:
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:
TAGAACCATCATCATGTCCACTCAC
R:
CATCCAAGACTTGTTCTTCCGT
Band lengths:
278-1366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]