RnoINT0092538 @ rn6
Intron Retention
Gene
ENSRNOG00000017699 | Mill1
Description
MHC I like leukocyte 1 [Source:RGD Symbol;Acc:1311714]
Coordinates
chr1:79649969-79652076:+
Coord C1 exon
chr1:79649969-79650244
Coord A exon
chr1:79650245-79651551
Coord C2 exon
chr1:79651552-79652076
Length
1307 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
ACTCACTTCTCTTCTCCCAGGTT
3' ss Score
9
Exon sequences
Seq C1 exon
GCCTTCACATCCTCCAGGCAACCCTGGGCTGTGAGCTTCAAAGAAATGGAAGCACTAGAGGCTTCTGGCACCTGGGCTATGACGGGCGGAACCTCCTCACCTTCGACCAGAAGACTCTCACATGGACAATGGATATGCCCTTCACCCAGCAGAAGAAGACGTTCTGGGAGCCACGTGCACCCAGGGCTGACCTAGTTAAGACGTTCTTGGATGACACATGTCCTGCTCAGCTCCAGAGACATCTGGCTTCCTTGAGAAGTGAACCACTTGACACAG
Seq A exon
GTACTGACTGTCACCAGAGTTGGTTCCCAGAACCCAGGGGAGCATTCCTGTGGACCAGTGGCCCCTTCCATGGTATTTGTGGTGGTCCGAATTCTCACTTGTACGTACAATGGTGGCACAGTCTATGGTGGTGCCTGGAAGTGGGGACATAGAGTCTCTTCCAGAGCCACTACTAGTGCCCTCAGATCAGAAAGGAGGGGTTCCCAGAGTTTGGCTGGATCTCAGACACAGGGGCCTCACATGCAGCATAAAAAGCACTCCCCTCTTTCCAACAACCCCCACTCTAAGATAGAGATTGTCCTGGAGGAGGGGAGAGCCCTGGGTGGGATGGGTGGGTTCAGAGCCACCCTTACCGGGAGCTAAAATAGGAGAGTAGGACATAACCCTGGGGCTGTACTACAGATTCAAACACAAGCTACCCCATGTCACGTGACCTGATCTAGGTCCTCTTACTGTTGCTCAACTCTTACTTTTAAAAAAGTCAACCTGGGGCTGGAGAGATGAGCTCAACAGGTAAGAGCTCTGGTTGCTCTTGCAGAGGACCCACGCTGGATTCCCAGCACCGGGCAGTGGCTTAAAACCATTTGTAACTCCAGTTCTGGGGAATCCAGTGCCCTCTGTTGTCTTCCATAGGTGCTGGGTGTACACATGGTACACACACATTCATGCAGGCAAAACAGTCATACACATAAAATGAAGTAAGTAAATATATAATGCTTAAAAGGTTGTGTTTTCTTTTTAAATAGCTTTGTCTTTTATAAAAACAGAGTCTCATGATGCCTGTCATCTACACACACACACACACACACACACACACACACACACACATCTCCTATCTCTAGGAAATCTGTGGAGGAAGAAAGACAGGAGGCAGACACTGGTCAATTCCAGAATCAGGGCTACAGTCAGTTGACTGTACTTCAGGAGTCCCTCACTTGTCCCTTAAGGCTTGTAAAGCTGGCTTTGTCATAGAAACGAGGCACATCCCACCCAGGTTGGATCTGTAGCCTCTGTAACCCTGAGCCCCTGTCCTCTTGGTACCTGTTGCTCCCTGTGCTGGATCGAGGACCTGTCGACCGCTGAGAGCAGGGACATCATGTTCTCTCATCGTGCAAATCAGAGCCTGACCCTAAAAAGCATTGGGAGCCATTGGAACTGAGCCCCAGCCTCCCTCAATCCTACAGCCACTGGGAGCCTCCCAGGAGGGGAAATTGGAGGCGAATATGAACAGGGTGGTTCTTCTAGGCAACCTACCATGCTGAGATAGAGGGATCCTCACCCTCACTGACTCACTTCTCTTCTCCCAG
Seq C2 exon
GTTCCCCGATGGTGATCGTGACCTTCAGGAATTATCCACTGGGCAGGGTCACACTGACATGCCGGGCTTTTAATCTGTATCCCCATATGGCCACCAGGGGCACCCTGGCCTGGCTTCAGGATAGGAAGCTGGTAAAGCAGAAAGCTTTTGAACCAGGGACCATCTTGCCCAGTGGGGACAGGACCTACCAGATCTGGGTGTCCATTTGGGTTCTTCCTGGACAGGAACCACAGTTCACCTGTAATCTGAGTTACCATGGTGGCAACATAGAGAAGCGTGCTGTTATTGTGAACACTGTCTCTGGTGAGAAAACAAGACAACCTTCCACCTCAGGTGTGGGAGGCAGGGTCAAGAAAAGCCTGTGGACTACAATGACCACAGCTTTTATGGTGACCTCCTGGACCAGGAAAACTGGTGGGGACTCCACTCTGCTTCTGCTCTGGTGGCTTCTGTTCTTTTCTACAGTGTTGGCAGTTCTGACCCTCGTCTAGAGCAGCACGAACACCCAAGACAGCAAGAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017699:ENSRNOT00000035286:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.037
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(49.4=93.5)
A:
NA
C2:
PF0765410=C1-set=WD(100=49.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
GACACATGTCCTGCTCAGCTC
R:
AGCACGCTTCTCTATGTTGCC
Band lengths:
345-1652
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]