RnoINT0144368 @ rn6
Intron Retention
Gene
ENSRNOG00000038948 | Stab2
Description
stabilin 2 [Source:RGD Symbol;Acc:628822]
Coordinates
chr7:27412498-27414220:-
Coord C1 exon
chr7:27414095-27414220
Coord A exon
chr7:27412572-27414094
Coord C2 exon
chr7:27412498-27412571
Length
1523 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGT
5' ss Score
7.03
3' ss Seq
TGTTGACTTTTGTTTTAAAGAAA
3' ss Score
6.12
Exon sequences
Seq C1 exon
CCATCAATGCCTGTGAGACCAGCAATGGAGGATGTTCTACAAAGGCCGACTGTAAAAGAACCACCCCAGGAAACCGGGTGTGTGTGTGCAAGGCAGGCTATACCGGCGACGGCATCGTGTGCCTTG
Seq A exon
GTAGGTGAACCCCCCTCCCCCACCGTCCATCTGGAGGAAATGGTATCAGTCAGAGCCCTGTTAAAACGTTCTAGGGTGTGAACTCTCGTTAGGACTGAGGTTGGGGTCGTAATTCAGTACGACTTAGCCAGAAAGCCTGCGGGCATGGCAATGATGTGCCCACAGCAGCATGAAGGCATTCTGAATGGAAAGAGAGACCCTTTCCACTTAAAATTTCTAGTAGCAGCTAAATGTTGCACAACTTTGCTATACAAATTTCCAAAAGGCCGTGGTTGGGTGGAGGGTAATGAAAAGATAGCCTGGTCTACTAGGAGATGAATCTGAAGAGGGAAGAGGCATGAAGTCCTCTCCCTTCTGGGGCTCCTTGCATGCTAGGGTGAAGGTCAGCATTCCCCTCTCTCGGGGCAGGGGGTGAGCTGTACTGGCCTGGACTTCCGGCATAAGGTTCTCTAGAGACAGGGACTTTCAGACTACTTTACATTACTTTACTTTATTGCTTACCTATTTTTTAAGTGTTTAAATATTTTGGTATTTTTAACAAAAAAAAAAAGTATCTTAGGATACAAAGTGTTTCTCCTTGATGGTGTAACAGAATAATTCCTTGAAAGCATACTTTGCCGACAGCATACTCTCGAGGTGTGCCCTAGGAAGCTGGCCGAATTTTAGGGTCTACAGCTCTCTTTTTCCTCTGCTCTCTCTGTACGTTTTCCTTAGTCGTTTGAGCCTAAGCTGTGCAAATCATGTATTGTCCCTAATAACCGAGTATGAATTAATTTCTTAAGAATATAGGCAGCTTGTTATGAGACCACACTCAGTTCCTGACTTCAGGAAGGTGGTCATCACTATAATACGCTCTCTAATTCTCTAATTCTATTCACGGTGCAGTTCCATGAGGTGTCCCAGTATTTCTCTACTACGAGGTCTCTGGAGGCCTGGATGCTGCATTGAGTGTCTTAGCAATTTGGTCTAATTATTTTTAGGTTCTACTTGCATATTCCAGAACAAAATGTCACAAAAATGGTGTCACATCTGTGGCCCAATGTCACAGGTGTCAGGTCTCCACCTAGCCCTGGTTTATGCTATGCATTTTGACCACTAGGTCGAAGTGCCTCCTGTTACCCACTGTGTAGTCATTGCCCCTCTGTTACTATTGCAATCGATGGAGAGGTGCTTTAACACCATGCAGTCCACTCCTCGGAATGTCCTCAACTGAGTTGGCCAGTCCTCCCCTGGGACGTTGCAAAGGATGGCATCTTCTTTCTCAAGCTGACCCGTTCATAGCATGAGTGAACCGGAGGTCAGATTTAAGATGCTGCCTCTGCTAGAATTAGCCAGTGCCGAGGTAGTTTCGAGTAACCATTCTTCCCCACTGAGTTACTTCTGCCTCCACACTTCCAGAACAACTGAGTCCCAGGTGACTCCCGCTGCGCTTGGTCAGTTATCCAAGGGAGACTCCCTCAGAAATGCCTTTTCACAGAAATAAAGCTTGTGGCTCATGACACATGTTGACTTTTGTTTTAAAG
Seq C2 exon
AAATCAACCCGTGTTTGGAGAACCATGGCGGCTGTGACAGGAATGCAGAGTGCACGCAGACAGGGCCCAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000038948:ENSRNOT00000059538:45
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=WD(100=86.0)
A:
NA
C2:
PF129472=EGF_3=PU(54.1=80.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCAATGCCTGTGAGACCAGC
R:
CTGGTTGGGCCCTGTCTG
Band lengths:
198-1721
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]