RnoINT0088574 @ rn6
Intron Retention
Gene
ENSRNOG00000016584 | Mamdc4
Description
MAM domain containing 4 [Source:RGD Symbol;Acc:708583]
Coordinates
chr3:2793514-2795109:-
Coord C1 exon
chr3:2795008-2795109
Coord A exon
chr3:2793625-2795007
Coord C2 exon
chr3:2793514-2793624
Length
1383 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CACCTCACTTATTCTGCCAGCTG
3' ss Score
5.64
Exon sequences
Seq C1 exon
GAGAAGTCTCTAGACTGCACAGCTTCGCTTGCACTGGGACACCCTCTAGCCTGGCCATGTGCCTGCCTAGCTGCCTCCTCTCAATCTGGGTCCTATTTATGG
Seq A exon
GTGAGTAAACTGTTGCCGGATGCTGGTTGGTGTGATGGCAGCCAGAGGAGTCTGTCAGAAGTGGGCCGTCAACAATGGGAACATTCAGAACAAGCCAACAGGGCTGGAGTCGCCCACCTAAATTGTATCCCCTTGTCCTAGAGGAGAGGCCACAGGCCATAGGTGACCATCTCCCTGGCTTTCTGAGCCTTTGCCTGCCTCTCCCATTGTAGAACAGGTACAAGTCCCTTGGTCATCTATCCCTCAGTGTGTCCTCCTTTTTTTCTTTTTTCCCCCGTTTTTGGTTTTTGTTTTTGTTTTAATTTTTTTGGTTCTCCAAGACAGGGTTCCTCTGTGTAATCCTAGCTGTCCTGGAACTAGCTCTGCAGACCAGGTTGGCCTCGAACTTACAGAGAACTGACTGCTTTTGCCTCCCGAGTGCTGAGATTAAAGACCTGTGTCAACATCACCTAGCTCTATGGGTCGGCTTATAGAGCAGGAGGAGCCCTACCGGAAGATCTTCCAGTTCCTAGTCATGTGGGCTCCTTCTTTGTAAGACCCTTTTTCCTGTCCCTGGCAAGCAGGGGCTCTGTGAGGCTAGCAAGGTGGGAGGGTGTTCTGTTGACTTTCAGTGTAGATCCCCTGTGGCAGTTCCTGATAGATGTCAGGTTCCTCCCTATGTGATCCTATAGAGCTGAACTCCAATTGACAAGTCCTCTGGCCTGTCCGGGTCTGGGGCTTCTCTGGATATAGAATTTATACTGCTCAAAATAGCCAGTCAGGGCTGGCAAGATGGCTCAAAAGCGAAATGCATTTGCTGCCAAGCACTGTGGCATTTATTCAGTCCTAGGTCTCACAATGGAAGGAAATCAATGATTCCCGATTCAGTTGACCTCTGACCTTTACCCCTGTTGCATAGCACATATTTGTACACAAATGCAGATATACAGATGTTAAAAAAATAGGCACTTGGGCAGGAGAGATGGCTCAGCGGTTAAGAGCACCCGGACTACTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAAAGAGATCCGATGCCCTCTTCTGGTGTATCTGAAGACAGCTACAGTGTACTTATATATAATAAATGAATAAATCTTTTTTTTTAATATTTTATTTATTTATTATATATATGAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGCATCAGATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTCGGGAAGAGCAGTCGGTGCCCTTAACCACTGAGCCATCTCTCCAGCCCAAATGAATAAATCTTTAAAAAAAATAAAATAAAATAAAAAATAGGCACTCACCTCACTTATTCTGCCAG
Seq C2 exon
CTGCACAGTCTCTAGGCAAGACCTGGGTCCCTGACCACTGCAGAAGCCCCACCGAAGCTACGTGCAACTTTGTGTGTGACTGTGGAGACTGTTCAGATGAGGCTCAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016584:ENSRNOT00000022390:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
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:
CTCTAGACTGCACAGCTTCGC
R:
CACACTGAGCCTCATCTGAACA
Band lengths:
206-1589
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]