RnoINT0010233 @ rn6
Intron Retention
Gene
ENSRNOG00000012892 | Abca4
Description
ATP binding cassette subfamily A member 4 [Source:RGD Symbol;Acc:1309445]
Coordinates
chr2:225720878-225724407:+
Coord C1 exon
chr2:225720878-225720943
Coord A exon
chr2:225720944-225724326
Coord C2 exon
chr2:225724327-225724407
Length
3383 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTGGTGTCTGATCGGTTCAGGTT
3' ss Score
6.55
Exon sequences
Seq C1 exon
GAGACTATGGCACCCCACTTCCCTGGTACTTCCTTCTACAGGAGTCTTACTGGCTTGGAGGTGAAG
Seq A exon
GTGAGTTTGTTTTGTTTTAATTAAAACAGGTAGTGGTGATGCACACCTTTACTACCAGCACCTGAGATGCAGAGGCAGGAGGGTCTCTGTGAGTTCCAGACCAGTCTGGTCTACAGAGTGAGGTCTATACAGCTAGGGCTACCCAGAGAAACCCTGAGCTGAAGAGGTGGCTCAGTGGTTAAGAGCACTGACTGCTCTTCCAGAGGTCCTGAGTTCAATCCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCCAATGCCCTCCTCTGGTGTGTCTGAAGACAGGGACAGTGTGATTATATAAAACAAAATAAATAAATCTTAAAAAGAAAAAAAGACCAACAAAACAAACAAAACAAAAGTAAGAACAACAGATACCCTTCAGGACTGAAACTACTTTTTGGGGGCATGTGTAAGACATGTTAACAGGTGTCAAGGTGGCCCTGTGTCAAGTGCATGATTCCTGCTAGTCAGCTGCCTGCCATGGGCAAGTGGGATGTCACAATGTCACAGCTTCCACAAGCTTACCTTTCACGAATCCCAGAGCCAGAGTGAAAAGCAGGAAGTTGACAGTTGGTCCTGGGGCATTGGATACCTGTTGAAAAGGGTGCACCGTTTCGTAAGTTCAATACCTTTCTCCAACTTTTAAAGCAGAGATCTAGGAATCATTGAGAGAGCCTCGCCCTCAACTTTTGCTGCCTCCTTCCTCTCTGCCGTTATGTTCCACATTTTCCAAACGCACAGTAATTCACTCTCTGAAGACTTTCTTATGGTTGAAGAAGGCAAAAGGGACATTGGCTGACAGTGCCCCCCTAAGTCCAATTTATCTTTCTTAATAAACCAAACAGTAGGCCTAGAAGTTTCTAGAAGTCAGAAGGAAAACCTCGTCTCACAGTCTTGGAGTTCTGAGAAGGCAGAGAAACTCTGGATCAGTGGTTCTCAACCCTTCTGGTGCTACATCCCTTTAGCATGACTCCTCGGGCTGTGGTGACCCCAACCATAAAGTGATTTTGGTTGCCACTTCATAATTGTAATGTTGTCACCGTTATGAATTGTAACGTAAATATTTTTGGAGATAGTCGTCCAAGGGGTCTGGATCCACGGGTTGAGAACCACTTTTCTAGAGTGATAAGCTACAGTCTCTGCTAGAACTGGGAGGCTCTGAAAGAGAAACCACTGCTTACCAGCATTAGCGTTCACCCTTCGCCTGTCCACGCTTCACTTTGAGTTACTGGGCCTGGAACAAGATTTAGCCTTTAAGCACTCACAAAGGTCTTTAGTTTTTCTTTAACTTTTAAGGTATTTAATCTGGAGCCTTTAAAAAGCTCGTATAAATTTTTGTCTGGTTGGTATTTTAAGGGTCTCCCCCTGCCCCCAAGTATTTTTCTTTGTATATGTTTTTATGTGTATGAGTGCTCTGTTCATGCCAACAGAGGAGGGAATCCGATCCCATTATAGACGGTTGTGAGGCACTATGGGGTTGCTGGAAATTGAACTCAGGACCTCTGGAAGAACACCCAATGCTCTTAACCTCTGAGCCATCCCTCCGGCCTCTTTATATATTTTTTTAGTTCACACAAATACTATTTTGACAGGCCAGTATTTTCCTATTATATTGTTTTTGTGCACCATGTTTATCTACAAACTTTTAAAATTCCACTAAAATAAAATCTTCAATCCATCACAAATAGGTATATTTAACATGGAATGTTATTGTCAGTGAACATAGGGGCTCATGCTGTCCCCCAACCCCTACTCCAATATCCCAAGAGATACTCTGCTGCTCAAGAAAAAAAAAATCTTGAGAAACATGTTCCTTGAAAACCAGACACACACTTTTGCTGACAGAAGTGAAATACTTTTCACCTGTCTCATAGGCTAGAATAAATGTAACCCCTCACACTATCTAAGATCAGACAGCGGCTGAGTCACTCCCTAACCCCCTTTCATTGTTGAAGAAGCAGAGACTTGGAGTCATCAATTTCCTATTGAAAGCCCCCTGGACACTAAGGCAAAATTTAGAACAGCTGAGGACATTTCACGAGGAGGGTGTCACCCTAGCGGTTATTTAGAAAGATATTTGTTCTTATTGTTTTATTACACAGGAGGGTGGTTGATAGCCAGTATGTTGACCTTAGGAACTGTGGAGAATAAAGTCAAAACTGCTCAGGAAGTGCAGACAGAAGTACAGGGGCAGCACACCTCTGACCACCAAGCCTTGGCTCTCACATCCTGAAAATCTAGAGGCCGTGGCGACGTGGCGACGCTGAGAATACTCCCAGGTGCTTGCCCCTATGTACTTGAAGCAGAGCCCTAAGGGCTTGGTGCTAGTGGCTTCCTTTTTCTTCCTGCTTCCTTTCTGGCTTGGTTGCCTTTCTACCTCTTCCTTTTCCAGGGTGTCCTTGATACCAGACCAAATGCCATTAAAAAATAAAATATCTCTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGACAGACAGACAGACAGACAGACAGACAGACAGACAGAGACAGAGACTGAGAGAGACAAAGAGAGGAATCCCATATACCCACCAGGCTCCACCCTGGTATTACCCTAAGATTTCTGAACACCCAAATACATGGCTTTTTAAAGGGAGCTGTTTCCCAAACTCAGATTTAAGCTAGCTACCCACCATATCACTATAGACGGATTTTTGCTCAGGGCTCCCATGACTGACATGTTTTAGTTGGAGCAAAAAGGACCAGGTGGTAGGCTAAAGAAAACCAACCTATTACAGATTTAATCCTGAGATGGGCTTTTTGATTTGTCTGATACTGTTTTTCTCCTGAGAGGGACAACATTCAAGACAGAGTTTCTCTATGTAGCCCTGGCTGTCCTGGAACCTGCTTTGTAGACCAGGCTGGCCTTGAACTCAGAAACACACCTGTCTCTGCCTCCCCAGTGCTGGGGCTAAAGGCGAGCACCGCCACTGACCAGCTTGTTTTTGTTTTTATTACAATTTCTGACATGGGAAGTCTGCCACATTAAAAGGAATTGGTGAGTGCTGCAAGTGTGGCTTGGTGGTGGAGTTCCTGTCTACCAAGCAGGGGGTACTGGATTTGATTCCCAGCTCCCTGTAAAAGCAAACAGAGTAAATCAAAGCTCTCCAGCTTCAAGGCTCCAATTAAAAAAAAGTCCCCCTGGGCCCTGAGAAATTGGCACAATCAGATTTGAGTACCTCACAGCCTGGCAGCAGGTCAGAGCTGGAGACCATGCAAAAGACTGGTCTCAAAGCAATGATGGCTCCACCTCCTGTGGTGGGAAACACATCCGTTCCCTCTACACCTCCTCTCCTTTCCTGTCTCTCCTGAAGAGTAACATTGGTGTCTGATCGGTTCAG
Seq C2 exon
GTTGTTCGACCAGAGAAGAAAGGGCACTGGAAAAGACTGAACCCTTAACAGAGGAAATAGAGGATCCGGAGTACCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012892:ENSRNOT00000017878:17
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=0.679
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
Zebrafish
(danRer10)
No conservation detected
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]