RnoINT0080279 @ rn6
Intron Retention
Gene
ENSRNOG00000060246 | Klrd1
Description
killer cell lectin like receptor D1 [Source:RGD Symbol;Acc:2978]
Coordinates
chr4:163368009-163369854:+
Coord C1 exon
chr4:163368009-163368112
Coord A exon
chr4:163368113-163369501
Coord C2 exon
chr4:163369502-163369854
Length
1389 bp
Sequences
Splice sites
5' ss Seq
TTTGTAAGT
5' ss Score
7.4
3' ss Seq
CATTTTCTTCTTTGTTACAGATT
3' ss Score
10.25
Exon sequences
Seq C1 exon
AGTTTTATGAGCTCCAGTCAAGCCTTTTTCTGGATTGGAATCCACTATAATGAAGAAAGAAGTGCCTGGCTATGGGAGGATGGCACATTTCCCTCAAAAGATTT
Seq A exon
GTAAGTTTCTGGTTATTGAGGATTTTTGAGGTATATTTTGTGAATTTATCCTAGCTATGGTTATTGAAAACTCACAGTCAAGAGACTCAGAAATACAAATATCTTGTGTGGAGCATGAGAATATATACAATCCTAAGGGAACAGCAGACGGCTGTCACTGTTCTACCCATAACATTCAAGTTTATTCTCAAGGGATATGAACATTGAGGGCCTGATATCATCAGAGAATTTTAGTCTTTTCCTTACTGTAACATAATAGGAACACCATATGTGTCTATGAATGCTCTTAGAAACAGGCAAGCCCAGAGAACACAGCACATACATTTTTGTTGCTTTGGTGGATCCCCCCCTTTATTTTTACTATCTTCAAATATTCAGCAGTTATTTTCTGTATAAATGTTATCCTTGGATCTCATTCACAAACATGAGATCTAGAGACTCATATCATGACAAAGTTTGTGTTTATGCCCTTTCCCCTAGATTAGGTCAACTAATAAATGTATATCTATGCACATATATACATATGTCTGTATTATACATAATAGATTTTCTTTTATACAGTGTAATCTGATAACAGCTTTCTCCTAACTCCTCCCAGCTTTTACCCCTTCAAATACTATACACGTTACAGTTAAGGGCAGCCCCTATTATGCCCAGCAGTAGTTGACAAATAAGCAAGTTTGGTGGTATTTTTGTAGGGTGTTTTGCTTTGTTTTGAATGCTTTCTTAGGGCACTTTTTCTTTAATCTTTTAGATATTATGCTTTCCAACGTTGTTTTTATGGGTTTTCTGTGTCTGTTAATGTGTACACCTCAGCATCTGCATACATTTCTTGGGCTTTTACTCTGGTTCTTTTATTTTTGCTTGTTTCTTTGTTTGTTTTGCCCAACTCATATTCTTAACCAAACAGAAGACCAACATATTGTCAAATCATTTCTGGCAAGGCATAGTAGTATATACCTTTAATTCCTACACTGTACAGGCAGAGGCAGGCATATTTCTTTGAGTTTGAAGCAGTCCTGGTCTACCTAGTGAGATTCAGGTCAGCCAACACTGGGTACCGAGACTTTATCTCAAAAAGCAAAACTAACAACTCAACGATTTCTGACAGAGTGGAACAGTCTGCAAATAAACGCATAGCAAAACCACACCTAGAATCACATTCTGTGGTGTTAGTGCTAGGGGCCAGTGAGAAAGAGTAATTGAGTTTCATGTAGCATTTCAGAAGTGTGAAAGTTGAGGCTGAAAGGCAACCAAAGAAGACCAAACAAAATCCCAAGCCACTCAGTAACTGTTTCCCTCAAGTGGTTTCCCACATTCTGAGTTAATAAAAACAACTGTAAACATCCTTCTGTTTTACTTATGTTAACATTTTCTTCTTTGTTACAG
Seq C2 exon
ATTTCCAGAGTTCTCAAAGTTCAGGCAAGACCACTGCATTGGTTATAGTATAAGCAGAGAAATTTCTTCTGAATCCTGTGAAAATAAAAACCGTTTTATCTGTAAGCAACTGCCTACTTAAATGTTTCTTAAGGCAAAGGATATGAACAAGAAAGGTCCAGGGTTACTAAAAGTAGTAACAGCTCTCAGTGTTACTACGTTTTTATCTTGCATCTGCAGGATTTCTGTTCACTAACATATCATTTTCATACATTTGAACCTAAGTAATTTATGCTTGATTACTTTTTCACACTTGTTTATGAAATTCAGGTGAATAAAAATAGAGATTTTATAAATATTTTGATTTAGGAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000060246:ENSRNOT00000082064:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=FE(34.3=100)
A:
NA
C2:
PF0005916=Lectin_C=PD(36.4=87.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
AAGAAGTGCCTGGCTATGGGA
R:
ACAAGTGTGAAAAAGTAATCAAGCA
Band lengths:
344-1733
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]