RnoINT0070509 @ rn6
Intron Retention
Gene
ENSRNOG00000016967 | Hfe
Description
homeostatic iron regulator [Source:RGD Symbol;Acc:2793]
Coordinates
chr17:43665690-43667203:+
Coord C1 exon
chr17:43665690-43665989
Coord A exon
chr17:43665990-43666927
Coord C2 exon
chr17:43666928-43667203
Length
938 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAC
5' ss Score
7.56
3' ss Seq
ACTTCTTCTTTTCCTTCAAGTGC
3' ss Score
7.67
Exon sequences
Seq C1 exon
TCACGAAGTTGAGAGTGGTGCCTGAGTCTCACATCCTGCAGGTGATCCTAGGATGTGAGGTGCATGAAGACAACAGTACCAGTGGCTTCTGGAAATATGGCTACGATGGGCAAGATCACCTTGAATTCTGCCCCAAGACACTGAACTGGAGTGCAGCCGAGCCAAGGGCCTGGGCCACCAAGATGGAGTGGGAAGAGCACAGGATCCGTGCCAGACAGAGCAGGGACTACCTGCAGAGGGACTGCCCCCAGCAGCTGAAGCAGGTCCTGGAGCTCCAGAGAGGGGTTCTGGGACAGCAAG
Seq A exon
GTACACGGAACTGTGCTCAGGCCCCAAACTGCAGAGTGGCAGGGAGTAAAATCCCAAGTATCAAGGCGAAGGATTCAGCCACTCCCAAGTATAGAGAAAATACTTCTGAATACTAAGATTTCCAGTTTAGTCATTTCTAATTTTCTGTCTTCCTTTCTCTCTCTTTTTCTTTCTTCTTTCCTTCATCCGTCTTTCTTTCATTTCTTCTTTCTTTCTTCTTTCTTTCTTTCTTCTTTCTTTCTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTTTCTTTCCCTTTAGACAAAATCTCACACTGTAGCCCAGACTGACTAACTTGTTATGAAACTCAGCCTGGGCTCAAACTCCTAGAAATCCCCCTATTCGGCTTTCCAAGTTTTCCAGGATTACAGTCATAAACAACCACATCTAGTCAATGCCATTCGTTTTGTTGTTGTTTATCTGTTTGTTGTTTTCTTCTTTAGTCTCTCACACTGTAGCTGAGGTTGGTGTAGATCTCACTATGTAGGCCTGATTAGCCACAAAACAGACCCTTGTCTTCCCAAATCTTGGATTTCAAAGTGTAAGCCCACTGTTGGGGACAGAATTTCCAATTTATACTGAGGTGTGTAACACAACTACTACAAAGTTAGAAAGGGGAATGTCAGTGGCCTGGCCAGAGGACTGGGCAAAGAGTGCTAAACAGAACAGATTGAAGTGCTGTTCTTCAATGTGGCACTTCCTTAGTGTGTGGCTTCATCTTGAAGCCATCATGAAGCCATTTTCAGGATACCAAATGGCATCTATGGCAGCCGGTTTCTCTGGAGAGGGTGTGCTCTTTTTCCTACCAAAAAAGAGAAGTGAAAATTCCAGTCCTCCTGCTCAGCTTAAAATAACTCTCCTCATGTACTTCTTCTTTTCCTTCAAG
Seq C2 exon
TGCCTACTTTGGTGAAAGTGACTCGCCACTGGGCCTCTACAGGGACCTCTCTAAGGTGTCAGGCTCTGAATTTCTTCCCCCAGAACATCACTATGAGGTGGTTGAAGGACAGCCAGCCCCTAGATGCCAAGGATGTCAACCCTGAGAACGTGCTGCCAAATGGGGATGGGACCTATCAGGGCTGGCTGACCTTGGCTGTGGCCCCTGGAGAAGAGACAAGGTTCAGCTGTCAAGTGGAGCACCCAGGCCTGGATCAGCCTCTCACTGCCACTTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016967:ENSRNOT00000022809:2
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=0.099
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(51.9=95.0)
A:
NA
C2:
PF0765410=C1-set=WD(100=88.2)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GCTACGATGGGCAAGATCACC
R:
CTCAGGGTTGACATCCTTGGC
Band lengths:
347-1285
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]