GgaINT0002562 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:41701434-41702651:+
Coord C1 exon
chrUn_random:41701434-41701544
Coord A exon
chrUn_random:41701545-41701671
Coord C2 exon
chrUn_random:41701672-41702651
Length
127 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
AGCAGGAACTGGGATTACAGATA
3' ss Score
-2.79
Exon sequences
Seq C1 exon
CTCCTCTTCCAGCCCCCAAACCCGGGCTGATCTCCCTGCTTGAAGGAGGAGAAGACCCCTGGATCCCAGATGTGCGTAGCCCTGAGGCCGTGCCAGGAGACCTGAGCCCAG
Seq A exon
GTGAGTTGCTGGAGGGAGGGAAGGAGGAGGCTGGGGCTGGAAGAGTCCTCTCTGTCTGTGTTTTATTTTGGGCACCGTGTGCAATTTCTGGATTTCCTCTTTCCTCCAGCAGGAACTGGGATTACAG
Seq C2 exon
ATATACTGGAGGATGTGCAGGAAGGTGGTGTGGCCGAAAGGCGGTGGGGTAGTGCCTGTGTGGGAGAAATGAGAAGGGATGTCCCAGGAGGCCTGGAGCAAGGTCAGGGTGAGCACATCAAGAAGGCACTGGGAGAGCATCTGGAAGAGAAAGGAAGGAGCCCACTGGACTTCAACATAGGTGAAAAGCAGGCGGAAGGACCCAGGAGCAAGGATGTGTGTCCAATGAAGAAGCAGAATCCATGCACTGAGTGTGGGAAAAGCTTGGAAATAGATTCCAGTGTCATTAACCACCAGTGCATGCACGCAACGAAGAGCCTGTACAAGTGCTCTGAGTGTGGGAAGAGCTTCAAACGGAGTTCCCAACTAACCCGCCACAAACACATCCATACAGGATGGAGGCCCTACATGTGCTCGGAGTGTGGGAAGAGCTTCAAAAGGAGTTCCCACCTCACCTGCCACCAACGCATCCACACAGGAGAGAGACCCTTTCAGTGCTCTGAGTGTGGGAAGGGCTTCAAAAGCTGTTCTGACTGGAAGCAGCACCTGCGCATACACAGACAGGAGAGACCCTTTCAGTGTCCCGCGTGTGGGAAGAGCTTCAAAAGAAGATCCGAGTTAAAGCTGCACCAGCGCATCCACACAGGAGAGAGGCCCTGCAAGTGCTCTGAGTGTGGGAAGAGCTTCAAAAGGAGTTCTAACCTCACACGCCACCAATACATACACAGAGAGAGACTCTTTAAGTGCTCTGAGTGTGGGAGGAGCTTCAAAAGCAGTTCTGAGTTGAAGCAGCACCAGCGAACCCACACAGAGCAGAGACCCTACAAGTGCTGTGAGTGTGGCAAGTGCTACAAAAGGAGTTCCCACCTCACCTGCCACCATCGCATCCACACAGGAGAGAGACCCTTTCAGTGTCCTGAGTGTGCAAAGTGCTTTAAACGCAGATCTCATCTCAACACTCACAAGCGCATCCACGGAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022172:ENSGALT00000035722:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.447 A=NA C2=0.183
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF132401=zinc_ribbon_2=WD(100=11.3),PF134651=zf-H2C2_2=WD(100=8.0),PF134651=zf-H2C2_2=WD(100=8.0),PF134651=zf-H2C2_2=WD(100=8.0),PF134651=zf-H2C2_2=WD(100=8.0),PF0009621=zf-C2H2=WD(100=7.0),PF134651=zf-H2C2_2=WD(100=8.0)
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:
GGAGGAGAAGACCCCTGGATC
R:
TTGAAGTCCAGTGGGCTCCTT
Band lengths:
242-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]