GgaINT0112646 @ galGal4
Intron Retention
Gene
ENSGALG00000012751 | STAB2
Description
stabilin 2 [Source:HGNC Symbol;Acc:HGNC:18629]
Coordinates
chr1:54950504-54952187:-
Coord C1 exon
chr1:54952111-54952187
Coord A exon
chr1:54950630-54952110
Coord C2 exon
chr1:54950504-54950629
Length
1481 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
GGCTTGTCATCACTGTTCAGCTA
3' ss Score
4.43
Exon sequences
Seq C1 exon
CTGCCTTCTCCTGTCAAATGACACTGCCTATTGCAAGTGTGCAGCTGGGTTCACAGGGAATGGGACGTTCTGCACAG
Seq A exon
GCAAGTGAACCTCATCTCCTCCCTGTTAAAAAGAGTGCCTGAAATGCTCTGTGGTCACAGTGTGCTGCTGAGAGAAGAGTACTCCCCTGTGCACCAGTTAAAAACAGGAATTGCTGCCAGTTTGCTGGAAATGAGTGAAAGTACAACAGGTGCAGATTCATAGCAAACAAAGGGCTCAAAGCCTGCAAGTTGTGGGACACTGTGCTAAGGGAGACCAGAGGAGAGGGAACATCCTGTGCACAACCCAGGCCCCATTGTTTGCAGGGTAATGAAACCTGGATTATGACTTTTACTCCTTTTTCCAACAAAGCTCAGCAAACAGAGATCAAGTCAGGGCACAACAGCACTTCCAGCTGCTGGGAGCTGTACAGCCATATCATTTCCTCAGCCTTCTGAACTTGTACCGATTTCTGGGGTGATAAAATTCAACTTATTTAGGGCATGCAGACCTGAGAGACCCTCCGAAAAGGGCAATAGCGGTTTACCATGTGTGCACCTCCAAGAGCTTGGAGATGCAGATTTATGGGATAGACCATTTCCAGTTGCAATTACTACAAATTTAGTTTCTTTACCTAATCCCTAGCTGATTAAGGTACTAATGTTCTTGGGAACAGAAACATATCTGTCTACTGACAATGGCTGGCAAGATCTTAACCCAATACCTTAGCACTCTTAACTGCCACTATCCCAAATCCAAGCCAACCAAAAGCCATTTTAATCTCTCAGTAAGAAATACACAAGTGCAAGAAGAGCTGGGGGACGCAGGTCACCCCTATTGGCTCTGAGCCCACCCTTATGCCCCTGCACAGGATTCCCAGACAAAAACAACCACAGCAAAATAATCTCCTCAGTCTGGCTGTTAGAGCTGCTGAAACAGCAATTTGAGGTCATTCGAGGCAAGAACTAAAGCAGAGTTTGAGCTGGTTTGATCCATGCTGGAGTTCAGAAAAAGCCCCCTCCCTGCATTCTGCGTAACCCAGGAAGGATAAGTTTGTGACCCTGCTGCTGCAGGAACAGCACAAACATCCATCTGAGTAACAACCAGTACTGTTTGTCACAGGAGGGCTGGGTGGTATTAGAGCCCACAAGAGACGGCCATTTGAACTACGTGCAGAAAAGGGCAAGCCGAAGAAAACCTTCAGACTCCCGTTTAATCTGGAGAAGAGTACAAAGGGCCCTTTTTTTTGTTGGTTGGTTAGAATGTGCAGAATCAGAAACTGGAAAGTTACCAAAAGCCAGATCTGGATGAATTCTTGTCTTCCAGACCAGACACATCTCCTCAGCTTTCCCTTTCAGGGGTAATAAAGAGAAATAAAAAAAGAGCTAATAAATATTTGGCACAAATAACATCTATAACCTGTTAAATGAGAAACATTCAGAAGATGTCAACAAATCCCTTTAGAAGTTTAAGACCACTTCATCTGACAAGAGAAGAGCCATGTAAGCATATTGGTTTAATCTGGCTTGTCATCACTGTTCAG
Seq C2 exon
CTATCGATGCCTGTGAGACCAGCAATGGCGGCTGTTCTGCCAACGCAGAGTGTAGAAAAACAACACCTGGAAACAGAGTGTGTGTCTGCAAAGCCGGGTACACCGGAGATGGAGTAGTCTGCTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012751:ENSGALT00000020806:41
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:
PF129472=EGF_3=PD(68.6=88.9)
A:
NA
C2:
PF129472=EGF_3=WD(100=86.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCCTTCTCCTGTCAAATGAC
R:
GCAGACTACTCCATCTCCGGT
Band lengths:
199-1680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]