RnoINT0011106 @ rn6
Intron Retention
Gene
ENSRNOG00000007041 | Abcg2
Description
ATP binding cassette subfamily G member 2 [Source:RGD Symbol;Acc:631345]
Coordinates
chr4:88888395-88890268:+
Coord C1 exon
chr4:88888395-88888483
Coord A exon
chr4:88888484-88890000
Coord C2 exon
chr4:88890001-88890268
Length
1517 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TTTGTGTATTTCTATTTCAGATG
3' ss Score
11.1
Exon sequences
Seq C1 exon
GCTTTGCAGCATAATGAATTCTTGGGACAAGAATTTTGCCCAGGACTCAATGTAACTATGAACAGCACCTGTGTTAACAGCTATACAAT
Seq A exon
GTAAGTTTACGTTCAGCATCAGGGTATGTTTGGGTCTTACTTTAGTGTGCTGTAAATAGTTGCTGGGGTTAGAGGTAGGATGAGTCAAACTGTTGAGCCTTCATTTTCCAGTCTGTAAAAGGGCTCTTCATATAGTAATTCATATGAGTATATTGAACAGCTGGTATAACTTCTCACAGTTAGATCCATATTTAGGGTGAAAAATGCTCCCTGTATATTGACTGAGACATTTTAAAAAGCCCCTTGGCTATTTTATTGGCTGTTATTTTAAATTCTTACTTTTCAGAACTTGTGGGTTATAAATGGGCTGCTTTACTAGTTTAGAAGGGGCTTGTGGTCTCTGAACTGAAATGGGTTCTAACCCAGAGCCCAGAGTGGAAGGCAGTTGTAAGCACTAGGACAATGAGTGCGAATATGGAGTCCCAGACCTTGTTCTGCCCTACTGGCTTTAGGAACATCATGGAAGACAGGGCTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTACAGAATAGAAACTCTCCCTTTAAAAAGATGCGCTCTTTCAAAAATTAAATAGAATTCTAATAAATTAGATGACCTTCTTTTAAAATGTCAATAATTTTTATGATAATTGTTAATGGTTTGATTTTTAATACAGAAATTAATGAACAAAAGAATGCTGGTCTCCTGAACCTTCAGTTGTAGAAATAATTGCTGATAACAGGATGACTTTTCTATTTTTGGTTGTGAAAAGAGAAACTTCTGAAGAAAGGTTTTTTCCTTGTACCTCTCTGCATGCCCACTTCATTAGGGTTTGATCTAGGTCCTTCCTGCTGGTCAGGAGAGAGTGGACAGGAAAAGGGGCACAGAGAAGGAGGAGATGTGACAGGCTTCATGCTCACATAAGGTTCATACTGACAAGAAGAAGAAACCTGCTCTTAAAGCAGAGAGAAATGGCTGTTTTGAGAGCTTCCCATTCCCACCATGCACTGGAAGAGCAGCCACATTGGGTAGATTCGCTGCTAGGGCCACTCCATCCTCCTCTGGTCTACTTACTGCCTAAGGCTGTCAGCAATGTCCTCTCGTTCAGTGTCTGCAGTGTGAGAGCTGACAGACATGACTGGCTGAAAGCCCTTGCTCCCTTCTTGATAAGCATTCTGGTCTGTTTCCTCTTTGTGGGTGAGCAAAACTACAAGTGAAGGACTGAGCCTGGTATGGTCAGCTGAGGTCTTTGTTTTAAAGGCAGCTGATGAAGTATTTCTGCCCTTTGTAGACAGAAGCGTTATAGGTTTAAAATTAATGAATCGGAGGAACCAAGAAACTCTGTTCATAGTGAGAGTATGTTAACATGCCAAATTTGTTAAACTACTTAACAGTTATATTGTTTTAGGATTAACTAAACTTAATTTATTTGACTAAGCAATAGGTTTCTGTAACAAAGAAATACTGAATATATTGGTTAATATTTGACAGATGCTAGAAGTGAAGATGATTAATTTTGTGTATTTCTATTTCAG
Seq C2 exon
ATGTACTGGTAATGACTACTTGATAAATCAGGGCATCGATCTGTCACCTTGGGGACTGTGGAGGAATCATGTGGCCCTGGCTTGCATGATCATTATCTTCCTCACAATTGCCTACCTGAAATTGTTGTTTCTTAAGAAGTATTCTTAATTTCCCCTTGAAAGGACTATTGATAGTACTCCTATTAAATATGGGCACTTTGATTAACATAGTCAGTGTTCTTTTCTTCACAGTTATTCTGACATACAAAAATACCTAGTACTGAAAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007041:ENSRNOT00000009546:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0106119=ABC2_membrane=PD(2.8=20.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGCATAATGAATTCTTGGGACA
R:
TGTCAGAATAACTGTGAAGAAAAGAA
Band lengths:
326-1843
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]