GgaINT0036701 @ galGal3
Intron Retention
Gene
ENSGALG00000005940 | GFI1
Description
NA
Coordinates
chr8:14838250-14840028:+
Coord C1 exon
chr8:14838250-14838387
Coord A exon
chr8:14838388-14839862
Coord C2 exon
chr8:14839863-14840028
Length
1475 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTGGGCTCCTCTTTCTGCAGGAA
3' ss Score
9.89
Exon sequences
Seq C1 exon
GTCTTCTCCACACCACATGGCCTCGAGGTACATGTGCGCCGTTCACACAGTGGCACAAGGCCTTTTGCCTGTGACATGTGTGGCAAGACCTTCGGCCACGCAGTCAGCCTGGAGCAGCACAAGGCCGTGCACTCACAG
Seq A exon
GTGAGAGCAGGGCAGACTGCCAGGATGAAGGTGGGAGGGCCAGGGCCAGGGCCATTGCTTGCTTCAGCGGGTACCAGGCGGGCCATGAAGGCAGTCACAGGGCAGTAGGTGGGTGTTTAAACTGAGAGGAAGAAAGCATAGTAGGGCTGTAGCGTGCAGTTGTGGGTGAAGAGTATGGTGGTAGACAGAGTAAAGGGTAGGCAGCTAGCAAGCAAAGGAAGAATAGGAACAAATTGACAAATTACAGAATACTGACTCTGTTTCCATTCCCCTGACCCTGTGTGTGTCTGTATTAAGCAATGGGCTCTTTTGGCACTCCAGAAGTAACAGATAATAAATAATACATTTTCACTCTCTGAGATGGAAACTGTGAGGAGGGTGTGGACTTTGTTAACGGCTAAAGCAAGTCACTGTGCTTTCTTCTGACACAGCTCTCCTCATTTTTTTCTCCTCCCTCTCCACCAAAGAAGTGAACCTTCCCTTGTTGGTAGTCATTGTGTCCATGCAGGGAACATCTGAAAGACCAGTCAGGTATAGAGCACAGACTTCATCTGTCTCGACACCCTCTGAGTCACACACCAAAAGAATATGGTAGTTAAATTTGGTAGGAGTATTTGTAACATTTTCCATCTGCTGATATTGTTCCATATTTCCCCTTCACCCACCCACTTAACCTGGCAAATCTTCCTTCCTCAGATTGGGTTTGGGAGGATAGAATTACAGCAGTGTTTGTTTGCTGTCTTATTTACAGTTGCGTGAGCATGCATCAGCAGAGCGCACAATGAAGAGAAATATCTCATCACCCAGTAAATAATATTGAAAAGAGCACTACTGCAAATTAAGTCCAAGGAGGGGAGAAAATTTCTGGGAGTGTGCATAAAAAGCCAAATATGGTGCCTTTATTAAGCATAGCAGGAGGAGGAAGGTGTAATGAGAATTAAAGGAAAAGATGATCTGTGGTGGAAGAAGGTGATGGGGAGGCTTGTGTTAGGGAGAGACAGCAGTCTTAATGCATTTAGTTAGATTTGTCAAAGTAGTAAGCCAAAAAGCTCTTTTCCCCAGGTGCTCTAAGGTACCTTTCACTTAATTATAATGAAAGTAGAAATATGCAGTTAGTCATTAGGCTTCCAGCACAAATCAACCTGCTACAGTGATTTTCCCAGAGAGCCACACAGACCTCAGCACCTACTTTCCTGCATAGAGTGCACTTTGAACAGTGCTGCAGCTGCTGGTCTTCCCAGTGGAATGATTGTGGGACCATGTTGAAATGTGCAGGCGGTGGGAAAGGGTTCATTATCTCTTTTATTATGCAACACTGCCATGCTGGTTTTAGCATCTCCTCAGGCCAGCTTTCTGGAGATGTGGAAGTTCTTTCTAAGGCAGAAGGGGCAACATGATGTGCGGCTGGCCAGATTGTTGTTGTGGGATCTCTGGCATAGCGTAATGTGGGTGCGTTTGGGCTCCTCTTTCTGCAG
Seq C2 exon
GAACGCAGCTTTGATTGTAAGATCTGTGGAAAGAGTTTTAAGAGATCTTCTACTCTGTCCACCCACCTGCTTATCCACTCGGACACCCGGCCCTATCCCTGCCAGTACTGTGGGAAGAGGTTCCACCAGAAATCTGATATGAAGAAACACACCTTCATTCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005940:ENSGALT00000009558:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.107
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=58.7)
A:
NA
C2:
PF0009621=zf-C2H2=WD(100=41.1),PF102764=zf-CHCC=WD(100=39.3),PF134651=zf-H2C2_2=PU(38.5=17.9),PF0013017=C1_1=PU(11.8=10.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTTCTCCACACCACATGGC
R:
CTGTATGAATGAAGGTGTGTTTCT
Band lengths:
304-1779
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]