RnoINT0132772 @ rn6
Intron Retention
Gene
ENSRNOG00000002776 | Sell
Description
selectin L [Source:RGD Symbol;Acc:3655]
Coordinates
chr13:82372876-82373863:+
Coord C1 exon
chr13:82372876-82373262
Coord A exon
chr13:82373263-82373755
Coord C2 exon
chr13:82373756-82373863
Length
493 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
TGTGTATGATCTCCTTAAAGCCT
3' ss Score
5.74
Exon sequences
Seq C1 exon
ATCTCCTGCCACACCATGGAACTCACTGTTGGACTTACCATTATTCTGAAAGATCCATGAACTGGGAAAATGCTAGAAAGTTCTGCAAGCACAATTACACAGATTTAGTTGCTATACAAAATAAGAGAGAAATTGAGTATTTGGAAAAGACATTACCCAAAAACCCTACCTACTACTGGATAGGAATCAGGAAAATCGGGAAAACGTGGACATGGGTGGGAACCAACAAAACCCTCACCAAAGAAGCAGAGAACTGGGGTACTGGGGAGCCCAACAACAAGAAGTCTAAGGAAGACTGCGTGGAGATCTATATCAAGAGGGAACGAGACTCTGGGAAGTGGAATGACGATGCCTGCCACAAACGAAAGGCAGCTCTCTGCTACACAG
Seq A exon
GTGGGCAGTGCGACCACCAGAGTTAGAGTGACAAGACTCATTACCCTGTTCATTCTAAACTAAGCCTAACTGAGTCTTGAGCATAGCACGTCTGGGCAGTCTGTGAGTACAGAACAACTAAACAAAGTTCTACCCAGGTTGTGAGTGTGTTATGTAGGGAATAGGGCTGGACAGCCCGCACCTCCGTGACAGACAGAACGAGGTTGCTGAGAACTGGATGGTTTTTCAAAGCCTTTTCTCTAACACCTCCTCCTAATCATATAGACAATTGCTGTGAATGGACTAATTCTAAAAGCAGGCAAATGTCTCTAGCCAAATGGCTAGTGTATCTGATAAATAAAAATTGTAGCATGTGTTAGGCAAACATGTTATGAATACTTAAGCAGATCATTCCTCTTCATTGTAATAGTGTCAAACGAAAGCTTTTCTTGTGTGAAGAAGGGACTATGGGTGCAATCACATTAAAATGTCTTTGTGTATGATCTCCTTAAAG
Seq C2 exon
CCTCCTGCCAACCAGAATCTTGCAACCGCCATGGAGAATGTGTGGAAACTATCAACAATAACACCTGCATCTGTGACCCAGGGTATTATGGGCCCCAGTGTCAGTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002776:ENSRNOT00000003733:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=WD(100=86.2)
A:
NA
C2:
PF079748=EGF_2=WD(100=86.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTAGAAAGTTCTGCAAGCACA
R:
GCGGTTGCAAGATTCTGGTTG
Band lengths:
346-839
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]