RnoINT0037238 @ rn6
Intron Retention
Gene
ENSRNOG00000054251 | Clec7a
Description
C-type lectin domain containing 7A [Source:RGD Symbol;Acc:1565140]
Coordinates
chr4:163220695-163222792:-
Coord C1 exon
chr4:163222641-163222792
Coord A exon
chr4:163220814-163222640
Coord C2 exon
chr4:163220695-163220813
Length
1827 bp
Sequences
Splice sites
5' ss Seq
TTTGTAAGC
5' ss Score
3.93
3' ss Seq
GTATTTTTGTTTTACTACAGGAG
3' ss Score
8.59
Exon sequences
Seq C1 exon
GCGTCTTTTCTGGACCTTGCCTTCCCAATTGGATCATGCATGCCAAGAGCTGTTATCTATTTAGCTTCTCAGAAAATTCCTGGTATGGAAGTAGGAGACACTGTTCCCAGCTAGGAGCTCATCTATTGAAGATAGACAATGCAAAAGAATTT
Seq A exon
GTAAGCACACATTTCTGTAATTACCTGTGGTCTATATTCTTCAGAGCAAGAGGGATTCCTGCACTAACAATGTTAATATCATCATTTTATGTGGCTGCAAAATTAGGCTGTAGGCCTGCCGAGTACATAATGCATGGTTTTATTTTTAATTAATTAATTTGAAAGGAATCAGATTTCAGAGCTTGCAAAGTATCACTTGGCACCAAGCTTGACCTGAATTTGGTTCCTAGAACCCAGATAGTAGAAGGGGAAAAAAAGACTCGATAAATGTCCTCTGACCTCCACATGAGCACTGTGGCATGCCACCCAACACACATGCACAAAACAAATGAAAATGTTAAATCAAGTACTTTAAGACACACTTTATGATTGTTCGAATATTGTGGTAAGGGTTCTTAGCATTTGTATATTTGTACTTCAGTTTTCAAAGTTGAAGTGTAGGAGAGAAACTGTCCACTTGTTACTTTAATATCAAGAAAATATCAGCAATGACAATATATTTATCAATTGTTTGGTTTCTGTAAAATATTGAGGATGGCAAAGAGGTGGGCTTTTTTTGTTTTGTTTTAGTTTTTTTTCTTTTAATTTTGATACATAGTTTCCATCTTAACCCACACATATCTGGAGCAGAAATATCTTCTAAGTGGCAAAGAGGATTAAAAAGTAACCCTTCTATATACAGTTTAAAAGAGAAGCAACAGTTGCTAAAAGTCTAACATCAAATACCAATAACAAATAAGATGAAATTTTAGAAGCACCTGTATTAACAAGAAATTCTGTAGAATCAGGAGGACTTACAATACATGTTGAAGGAAGGGTGGGTGAGAATGCCAGAAAGCATCCCATAATACAATTCTAATCTGCACATCTTCACTACTCTGTTTTTATCCATCTGTAACTCCATACTCAAGAGTTGCATTTCTTGTGAAAGTTGATGAAAGTAAGAACACAGACAAGGAAGAGGATCATATTAGACATTCACATGGCCTTTGCTATCAACCTGGAATTGGCAAATAATCATCCCATTTTTTTGTGACCAATTTTCAAGAGTCTTCATTGAAACCTTGATTATTTTAATTGTAAAGCATGCAGTACAGACCAGGGGACATAGATCTGTGAAAGAGTGCTTATTTGACACCTGTTAGGCTCTGGATCTCATCCACAGCATTGTGTCCCTTGGTAAAGCTATTATGACTTTGCATTTGCTACTTGTGCAAAAACTGATGGCCCATTTCCCATGAAGAGGCTTGGGAACTGGACACTGCTGGATTTTGTGTAGTTTCTTGAATGAGGCAGAATATTGATACTATATGTTTTCCCTTTAACTTGTGTGAGTGCTTCTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGCATGCATGCATGCCTGTGTATGTGTGTGCACTGAACCTTGAGAGCTAGGATTACAACTACCCAACCCCAGGACTCTCCTGTCTTCAACCCCTACCAAACAGGAGTTAAAAGCATGCATGGATGCATATTGGATGGATATTGGGAATTCAAATTCAGGTCCTCGTTTGTTTGCAGCAAGCATTCTTACCCACTGAGCCATCTCCCTAGCTCACATCTTTTATTAACATTATGAATCTGTTCTTAATGGGAAAATTGAAAATGACTCTAAAGTACTTCTCTAGACATTCAACAAGATTCAATGATTGACAGTCCTCTCTAGATTGTCATCTTACATGAACATCCTTCTGTAAAAGGATTCATTCGGCTCTGAATGCCTGTAGCACTGTTTCAGGCTCCCCTTGATGTGCTTTTTTTTCTTGTATTTTTGTTTTACTACAG
Seq C2 exon
GAGTTCATTGAAAGCCAAACATCTTCTCACCGTGTTAACTCATTCTGGATAGGTCTATCTCGCAATCAGAGTGAAGGGCCGTGGTTCTGGGAGGATGGATCAGCATTTACCCCCAACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000054251:ENSRNOT00000077793:3
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=0.025
Domain overlap (PFAM):
C1:
PF083915=Ly49=PD(6.5=3.9),PF0005916=Lectin_C=PU(25.2=52.9)
A:
NA
C2:
PF0005916=Lectin_C=FE(36.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
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:
CGTCTTTTCTGGACCTTGCCT
R:
GAGTTGGGGGTAAATGCTGATCC
Band lengths:
270-2097
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]