HsaINT0000500 @ hg19
Intron Retention
Gene
ENSG00000144452 | ABCA12
Description
ATP-binding cassette, sub-family A (ABC1), member 12 [Source:HGNC Symbol;Acc:14637]
Coordinates
chr2:215910561-215914535:-
Coord C1 exon
chr2:215914350-215914535
Coord A exon
chr2:215910740-215914349
Coord C2 exon
chr2:215910561-215910739
Length
3610 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTGTGGTTTTATATTTTAAGCTA
3' ss Score
6.05
Exon sequences
Seq C1 exon
CTGTTAAAGCAAAATTCAACTTCAGAAGATATACGAAGAGAACTATGTGACAGCTATTCAGGATACATTGTGGATGATGCCTTCTCTTGGACCTTTCTAGGAAGAAATGTTTTTAACAAATTTTGCCTTTCTAACATGACCCTTTTAGAGTCTTCTCTCCAAGAACTAAACAAACAGTTCTCCCAG
Seq A exon
GTGAGTGTAGATCTTTGATCCACAAAGTGACTCAACATGAATTAAAGGGTAAATCTATAGCCCGTGTAGACTGGGAAATGCTGACTGGGATATTTGTTTACCTTAGGCATGTTTTCCTCACATAGACATTTGCACACAAAGTTTAATCTTAAGTAGTATTACTTATTTAATGTGAAAGGTTGAAACGATTTCAATGCTAAACCAAAAATATTACATTATGGTTAATGTGGACACACCTTTATAAATAAAATATGGCTTTGCTCTACAGTAAATGAAGTTTGATAGTTTTCTCTGAGATCTTTAGGTGAGATTACTCAGGCTGTGATACAAGTTTAATAATTAAACTGTCACAGTCATATAACTGCCAGAATTTAGAATAATGGGTAAAATCTTTTTATTTTTCTCACTGACTTCAAACCTAGTTTGAAAAGCTAATTTTTCTTTAATTGTGAATTTTCAAAAACTTTTATTTTAGGTTCAGGGGCACATATTGCAGGTTTGTTATATAAGTAAACTCATGTCACAGTGGTTTGTTGTCTAGATTATTCTGTCACCGAGGTACTAAGCCTAGTACTCAGTAGTTATTTTTTTCTGATCCTCACCCTCCTCCCACACTTCACACTCAAGTAAGTCCCAGTGTCGGTTGTTTCCCTCTTTGTGTCCACGTGTTCTCGTCATGTAGCTCCCACTTATAAGTGAGAAAATGCAGTATTTCGTTTTCTGTTCCTGCATAATTTGCTAAGGATAATGGCCTCCAGCTCCATCCATTTTCCTGCAAAGGACATCATCTCATTCTTTGTTATGGCTGCATAGTATTCCGCAGTGTATATGTACCACATTTTCTTCATCCAATCTGCCATTGATGGGCATTTAGGTTGATTCCATGTCTTTGTTTTTGTTTTGCTTTGTTTTTTGTTTTTTCTGAGACACAGCTTCACTCTGTCACTCAGGCTGGAGGGCAAAGGTGCTATCTCAGCTCACTGAAACCTCCGCCTCCTGGGTTCAAGTAATTCTCGTGCCTCAGCCTCCCGACTAGCTGGGACTACAGGTGCAGGCCACCACACCCAGCTAATTTTTTTTTTTTTGTATTATTAGTAGAGATAGGGTTTTGCCATGTTGGCCAGGCTCATCTCGAACTCCTGACCTCAAGTGACCCACCTGCCTCGGCCTCCCAAAGTGCTGGGATTATAGACGTGAGCCACTGCACCGGCTGATTCTGTGTCTTTGTTATTTTGTGACTAGTGCTGCAGTTAACATATGTGTGCATATGTCTTTATAGTAGGATAATTTATATTCTGCTGGGTATATACCCAGTAATGGGATTACTGGGTTGAATGGTAGCTCTGTTTTTAGGTCTTTGAGGAATCACCACACTGTTTTCCACAATGTTTAAACTAATTTATACTCCCACTAACAGTGTTTAAGTGTTCCCTTTTCTCTGTAACCTCACCAGCATCTGTTATTTTTTGACTTTTTAATAGCCATTCTGACTGGTGTGAGATGGCATCTCATTGTGGTTTTGATTTGCATTTCTCTAATGATCAGTGATATTGAGCTTTTTTTCATATGCTTGTTGGCTGTAGGTATATGTTCTTTTGAAAAGCATCTGTTCATGTCCTTTGCCCACTTTTTAGTGGAGTTTTTTTTTTTTCTTGTAAATTTGTTGAACTTCCTTATAGATGTTGGATATTAGACCTTTTTCAGATGCATAGTTTGCAAAAATGTTCTCCCATTCTGTAGGTTGTCTGTTTATTCTGTTGATGGTTTCTTTGCTGTGCAGAAGCTGTTAAGTTTAATTAGATCCCATTTGTCAACTTTTGCTTTTATTTTGATTGCTTTTGGCATCTTTGTCATAAAATATTTACCATTTCCTGTGTCTAGAATTGTGTTGCCTAGGCTGTCTTCCAGGGTTTTTATAATTTGGGGTTTTACATTTAAGTCTTTAATCAAACTTGAGTTGAATTTTGTATATGGTGTAAGCAAGGTGTATATTTTTTAATTGAGTTGAATTTTGTGTATGGTGTAACCAGTTTCATTCTTCTGCATATGGCTAGCTGGTTATCCCAATGTCATTTATTGAATAGGGAGTTCTTTCCCCATGGCTTGTTTTTGTCACCTCTGTTGAAGATCAGATGGTTGTAGGTGTGTAGCCCTATTTCTGGGTTTGCTATTCTGTTCCATTGGTCTATGTGTCTGTTTTTGTACCAGTACCATGCTGTTTTGGTTACTGTAGCCCTGCAGTATAGTCTGAAGTTAGGTAATGTGATTCCTCAGCAATAAGTTAGATTTTGATAAAACAGTATATCCCTCTCACCAAAATATTATACATTAGAAGCAAGAACACTCTACTATGGAGTGTTTGCATACATTAGTCTTTAAACAAATTTAATTTAATGTTAAGTTCCAGGATACATGTGTAGGACATGCAGGTTTCTTACATAGGTAAATGTATGCCATGGTGGTTTGCTGCACCTATCAACCCATCACCTAGGTATTAAGCCAAGAATGCATTAGCTATTTATCTGGATGTCTTCCCTCCCCCTATCCAGCTCTGACAGACCCCAGTGTGTGTTGTTCCCCTCTGTGTGTCCATGTGTTCTCATTGTTCAGCTCCCACTTACAAGTGAGAACATGCAGTGTTTGGTTTTTTGTTCCTGTGTTAGTTTGCTGAGGATAATGACTTCCAGCTCCATACATGTCCCTGCAAAGGACATGATCTCATTCCTTTTTTTCTGACTGCATAGTATTCCATGGTGTATAGTGTCATATTTTCTTTATCCAGTCTATCATTTATGGGCATTTGGGTTGATTTCATGTCTTTGCTATTATGAATAGTACATACACTAGCCTTAAACAACAATGGTAAAAATGAGACAGCAATAATCTACATTTAATGCAACCCCACATACAATGAGAGAACACAAAAAAATACAGTTATAATAATCCCCAATCCAATGTAAAGTACTTACAATTGTTTTTTTAACAAAATTGGCAGTCATGTAGAATAGAACATGTGGTAAAAAAGACATTGTTCAAAATCACATAGCACTAAGTATGTGTAATTGTAATAGTAAACATTTTCCTGAATTATGTATATATATATATACACACACACACGCTCTTATATATATTATATTATATTATATTTTATATATATATAAAAATCTATCCGTATCTCTACTAATCTATATATTAGTTAAGGAGTACTCCATCCAAACAATATAACACCTAGTAATAAGTATAGGGAAGATATATCTGCAACCCTAAACCAAGTCCTAAGAAAAAAAAACATTACTCAGAGCTAAAATTATTTTAGGAACTTAATTTTAATTTCCAAATATATAATTTGAAATATTTTATATAAATACAGCTTTGTTAACCAAACTTTTATGCCAATTTCTGGAGTTACAGGGAAAAGATCCAATTATGTTTAAGAACATTAGAAGTAGTTGCTGGTTTTCCAAATAAAAGATTGGCTTCAAACTGAGTGAAGGTCTAAAAGAATTGCTTATGTGAAAATCTAGATTTTTGATGCTTTTAAAAACAGCAAACCATGTGATTACAAATGTTAAAGTCTCATTTTGCTCTGTTTGTGGTTTTATATTTTAAG
Seq C2 exon
CTATCCAGTGACCCCAACAATCAGAAGATAGTGTTTCAGGAAATAGTCAGAATGCTGTCTTTCTTCTCACAAGTGCAAGAGCAGAAAGCTGTGTGGCAGCTTCTGTCTAGTTTTCCAAATGTGTTTCAGAATGACACATCACTAAGCAATCTATTTGATGTTCTTCGAAAGGCAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000144452-ABCA12:NM_173076:6
Average complexity
IR-S
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:
PF146371=FNIP_M=PU(23.9=51.6)
A:
NA
C2:
PF146371=FNIP_M=FE(44.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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:
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]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)