GgaINT0042869 @ galGal4
Intron Retention
Gene
ENSGALG00000005792 | ABCG2
Description
ATP-binding cassette, sub-family G (WHITE), member 2 (Junior blood group) [Source:HGNC Symbol;Acc:HGNC:74]
Coordinates
chr6:17112132-17113708:+
Coord C1 exon
chr6:17112132-17112221
Coord A exon
chr6:17112222-17113583
Coord C2 exon
chr6:17113584-17113708
Length
1362 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
CCTCCTTCCTGTCCTCACAGCCA
3' ss Score
10.68
Exon sequences
Seq C1 exon
GGTTGGATCCTTGTTCTTTGTCACCACAAACCAGTGTTTTTCCAGTGTCTCTGCAATTGAGCTGTTCATCAGAGATAAAAAACTCTTTGT
Seq A exon
GTAAGTAGTGATTCTCTTAGAGCCTCTCCTGCCCTGCAGTGAGGGGAGGGAGGGATATCTTACAGGCTAACCAAAAAGATTTCTGCCTGACAGAACTGGAGATTTCATTTCTTCTTCCAACATCAGAGTTGAATAGAAATGCTAAATGAGTCTGTAAAACAAGTAGCTGAAATGCTAAGAGGTGATGGAAGGAAGGGAAAAGTAAAATGCTTTTACTTGCTTGCTGAGTCACAGTTTACTGAAAAGCGTCTTTTCCATTTTTGGTAACAGCTGTTTTTGAAGTCTGTGTGGGAATCCTGCAGACTGTGAACCCTGCCTCTCCTGCTGCTGGCAGGGTTGAAACAGTGTTTTGCAATGATCCCAGAGTGATAAGACTCTGCAAAGATGATGGGGGAGTTCTTGGAAAGTCTTCACAAAGGATGATCAGAAGGGGTGCTAGTTGGCTTATAAGAGCTCTTAAAGAAATCAATTGCATCTATGTATATGCACGCATCTATATTAAATACATTATGGATGTGTGTGTATGTAAATAAGCATGTATAAACAAATGAGTACATATATATGTGTGTCAAAAATGTAGTTTGGAATAGCCTCCAGCTCATGGTATAAAAGAGCAAGCGACATATCCTGTGCAGAGGAAGTAGGAGAGTTGTGCCTGGAAAATGAGTGGTGTGTTTCTGTGAGGTGCTAGTCTGGATGTGTGTACATCTGCCCCTAGCTTGCTCATGCTTGGCATTTTCCCTAACAGCTGCTCAGAAATGAATCTCACCCATACAGACATTTTTGCCATTCTGTTCTGCTTATTGGCTGTGTCAGTGAGGATTTTGACACCTGACCACTTACAGAATCTTTTCGTGAGCTCCAGTGAGCAGCAAAGCAATCTTAGTGACATTTAATTGCTCTGTGAACTGGAGATGAGTTGATGTCCTTAAGGTGTTTTCCCATTCTTGGCAGCCATTCTTTCTTGGAAACAGTTGTATGAGTTCGCTTTGGATGAACTGCTTCTGTAGTTAATAAATCTAACACTTTCTCCTGCTCTTGTGTTCAGGTTTGTTCTTGAACAGTGTTTGGAGCTTTTTTCCAATATGTTGTTTAGCTGTCACGTAACTTTCCATGCATTTCACTCATAGTGCTCCTACTATCACTACATGGGCCTGTGAGTTGGCTCAGCCTTTGCTTTAGAGTGGGAAGTGATAGCACAGAGAAAATAATCAACTTTGCATGCAGAGGAGTCAGTGGTAGAAAGAACAGAAACTGACTAGGGATAAACCAGACACACTTACTGAGCTTGCTTCTGAAAGATGAGAGCTAAACCTGATGAGCTCTAAACCTGTGCAACTCCCCTCCTTCCTGTCCTCACAG
Seq C2 exon
CCATCAGTACACCAGCGGATATTATCGCGTGTCTGCCTACTTCCTGGCCTTGATGTTAGGAGATCTACTGCCCATGAGAACTGCTCCAGCCATCATATTCTCATGCATCACTTACTGGATGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005792:ENSGALT00000009304:10
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:
PF0106119=ABC2_membrane=FE(14.2=100)
A:
NA
C2:
PF0106119=ABC2_membrane=FE(19.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGGATCCTTGTTCTTTGTCACC
R:
CAATCATCCAGTAAGTGATGCATGA
Band lengths:
214-1576
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]