GgaINT0037220 @ galGal3
Intron Retention
Gene
ENSGALG00000005911 | MTF2
Description
NA
Coordinates
chr8:14701081-14702666:-
Coord C1 exon
chr8:14702573-14702666
Coord A exon
chr8:14701174-14702572
Coord C2 exon
chr8:14701081-14701173
Length
1399 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAAG
5' ss Score
-6.92
3' ss Seq
CTTCTGTCTTGTTCTAGGAGCCA
3' ss Score
-9.12
Exon sequences
Seq C1 exon
ATAAACAAACTGAAACAGAACTGCTTCATTATATTTGAGGACAGTTCCAAGTCTTGGGTTCTCTGGAAGGACATACAAACAGGCAAGAACTTCA
Seq A exon
GTGAAGTAGTCGTTGGGTATTTTATTTGTTTAGATTACTATATCTGTTAAAATAAATTGTTCCGTTGCATTTGTTTTTGTGAAAGAGCAATATAGCTTAAGGTGATGCAGGGTAATGCATTAGGCAAATTAAAAAACAAATTCTTTTCAAAAACTCTAGATCATTACAGTTACTTTTTTGTGTAACTGTGTAGTGGAACACTTCTAAAAAATAATTGTATTTGTTTACTTTGGTAGGGGAGTGTAATGCTGTCTTAACTGAAAACTCACAGAACCTCATTTGCATTGCATTGATTCTGTTCTCAGTTGAAACAGCATAACACGGGAAGAAAGCAAAGATTTGAAAATGCTAAATTTGAGTGGAATTATGTTTAAAAATAACACAATTACTGTGTAACACAGAAATCATTGCAGATTATTACAGGGTCTTCATGTACTCTAAAGAAATGCTCAAGTATCAAATGAGATGTCTGTTTCCTATTAACTTTGGATTTTTGGATGTTTAGGGGTGTAGGAATTATTACAATAATCTAATGCTAACAAAGTGTTCATGACAATTTCAGTGATGGTTTTGTTTGAAATCAGTGAAAACTTGCTCGTCAGATGAAAGTAATGGAAGTTCATGTGACTCCTTCTGATTCTTGATGTTTAAACAGACATTCTGTCTCTTAATGAGAAAAGCTTTGCATTCATAATACGAAAAAGCCCAAATGCTTCATTTCTGAGAAGCTTCTAAAAGATTGCTATTTGTCCTCTTACCGTGTGGCACTAACTAATGCTCACTAATGCATTTATGGTAAGGTGAATGTTAGTGCATGAGTATAATAGCACGTAGACTAAATAACTTGTTTTAATCTAGATTGTTACACCGATACGTGGTGTCACTGAAGCAAGATGAACTTTCATTTCCAGTATTTCTTTTTTCTTTGCTGTGTGCTTGGGCAAACCTATCAAAAAGGTATGCACGAAGTTGTGTGTATTATGTATAGAAAAAAAAAGAACAAGCTGCTGCGAATACAGAACATATCTATCAATTGTCCAGATAGGATTTCTTGATGTGAATTTTTCAGTCTACATTTGCATTACTTATTCACAGTTATTTAATTTTTATTGTTGTTAAGGAACCATGGAATGTACAGTAAATAGACAACATGTAACCTATATGAATCTGGTGGCCTGTGATAAATGATATAAATGCTTGTAATATATAAAGTCCATTCAAAGTGTCTGAGTTCATTTTTTGTTCAAGTGTTAGGCTCTGTAAAAATATGTCTGCAATGGATGGATCTGTAACTCATTTATAAAAACAAAAATCATATGCATGGTAATGGATCCGACTGCAGCTGTAGTCTGGAAATGACAACAAAAAAAAAAATCACACTTCTGTCTTGTTCTAGGAG
Seq C2 exon
CCACTGAAAGTGGGGAAATGGTCTGTACAATATGTCAGGAGGAGTATTCAGAAGCACCGAATGAGATGGTTATATGTGATAAATGTGGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005911:ENSGALT00000009507:3
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=0.000
Domain overlap (PFAM):
C1:
PF150571=DUF4537=FE(47.7=100),PF0013017=C1_1=PU(6.2=9.4)
A:
NA
C2:
PF150571=DUF4537=PD(20.0=40.6),PF0013017=C1_1=FE(64.6=100),PF144461=Prok-RING_1=PU(71.4=93.8),PF0062824=PHD=PU(44.4=75.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAACTGAAACAGAACTGCTTCA
R:
TTGCCCACATTTATCACATATAACCA
Band lengths:
182-1581
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]