GgaINT1017316 @ galGal4
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr17:554237-555821:-
Coord C1 exon
chr17:555646-555821
Coord A exon
chr17:554294-555645
Coord C2 exon
chr17:554237-554293
Length
1352 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGC
5' ss Score
6.16
3' ss Seq
TGGCACACTCTTAAGCCCAGGAC
3' ss Score
-1.77
Exon sequences
Seq C1 exon
TGAAGTCTTCCAGCAGCTTTGTGGCAGAAGTGGTGGTCGGCCTGCTGCTGGCTGTCATTGTGCTGGCACTGGTGGCAGCTGGTGGCCGGTACTGGCTGAAGAGGAGAGCGCAGGAGAGCGGGATGGCCATGGAGAGCAACACTCCCCAGGGCTTCGACAACATCACTTTTCAAGAT
Seq A exon
GTAAGCAGCAGCCCTGGCACTGGGGGGTGTGCAGGACTCTCCTGTTGGCTCAGCTGCCCCCAGCAGCACCAAAACAATGCTTTCAAAAAGCTCAGCAAATCCCAGAAGGCGCTCAGTGGGCCCACGGGCTGCCAACACGTCAGAGAGGGGCAAAGGGCTCTGCCCCTTATCTGAGCACTGGCAAATGAGTGACCCCAGGGCTGCAGGGATGACCTGGATACTTTGCTGCTGTGAGCAGGCATTTGCTCCAGAAACAGCTGAGGCTGTGCTCCTCCTCCCCAGAGCCCTGCTGGGGAGCGGGTCGTGCAAACATTGTTCCTTCTCCTCAAGCCAGCACCTTCAAACCCACAGAGGCAGCTGAAACTACATGCAGTTTCCTTTGAGGAGGTTGTGCCACACAGCCCCCAGCAGAGCCACCAACTCTTGCAGCTGTGCCAGGGCCGATCCCAAAGGATGGAGCCCTCCCGGCCTCACAGTGCAGCATGGCTGCTGGGCCCCCCCCATGCTGGCACACGGGTCATCCCCCCCAGAACCTTATATTTCCTATCAGACTACGCTTACTGCAATCAACTCATGCTGACCCTTCTTTACAGGACAAGGTCATTATAGCACAAGTGCCAAAGGAGCGGGATGAAGACTGAACTAAGCCAGCAGCACCCTCCACCTCCTCCGGCCCACAAGGTGTGCCCGGGGCAGAGCATGGCTCCTGCAGAACCTCGCACTCCATCCAGCCCACAGCTGCAGCCCCACAGCCCACTCACTGCCCCACGTCTCGCACCGCAGAGCTGCGGCAGGCAGCAGCCCTGGGGCACAGCGGGGCCGTTTCCACCACTACCTCCACGCTCGCGGGAACAGCACTGCTGTTTTTTGTAACATGAACTTTCTGCACCACATGGAGGCAGCGTGATGTGTCTGTGCATTGACGCCCAGGGAGCAGGGGCTTCTTACAGAACTGCCATCCCAGATGAGCAGGGTCCTGCTGGCTGCCCCCTGCTCGGGCGGAAGGGGCAAAGTGTACCATCGTGCAACATCCAGGGTTTCCCACTCCCAGGATTAAGCCCCAGGGAGCAACCTAGCAGCTCCCAGGGCACGGGAGAGCCCCAGCAGCCAGAGAGGACTGCACGGGGCTGGGGAGGGTGGAGGTGGTGGGGCAGGAAGCGCTATGCAGTGCAGCTGCTGGCAGCCAACAGTCCCAACCCAGCCGCACAGGACAGCCCCCACTTGTTGCAAGGGCTCTTCGGACTTCACATTTCAATTTCACTGGGAAACGAAAAACTCTCCCAGACACAGGCTGCGCTCAGGGCCACGTCATCCACTGCTGCAGCCAGGCCCTGGCACACTCTTAAGCCCAG
Seq C2 exon
GACCACTCATTTTTCCCCCACAGCTTTCAAAACAATTTCATCCCCTTGCCCTTGGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000040444:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.102 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
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGTCTTCCAGCAGCTTTGT
R:
CCAAGGGCAAGGGGATGAAAT
Band lengths:
231-1583
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]