GgaINT0077052 @ galGal3
Intron Retention
Gene
ENSGALG00000012068 | C4orf21
Description
NA
Coordinates
chr4:58680007-58681329:+
Coord C1 exon
chr4:58680007-58680121
Coord A exon
chr4:58680122-58681069
Coord C2 exon
chr4:58681070-58681329
Length
948 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TTCTGTTACATTTTTCTTAGGAA
3' ss Score
8.03
Exon sequences
Seq C1 exon
CATCAGTTCATGCCTTGCTAGTTTGTAATGCCAGTGGTGAGCTTATATCCTTAAGAAATATGGAAGAATACTTCAACCCATCTACTTTACCACTAATACCGTATCTACTAAAAAT
Seq A exon
GTAAGTTACTGTTTCAGTGTCAGTGTGAACATACAATATGTAAATAGGTACAGGAAAAAAAAATACCATTGAACTTGCTCTACTAAAAAGTGGACTTCCAGAGAAGTGGTGGAGTCACTGTCCCTGGAGATGTTCAAGAAACATGTAGATGTAGTACTTAGGGACAGTTTAGTGGGCAATTGTAATGCTATAATAAGATGGAAAGTACCATGATAATAGCAGAGTGGCAAAGTCTTTGGCTGCAGCAAATGAGAACAAGCCCAAGTGCAGCAGCCACAGATGCAGAAATGAAGGAAAAGAGCTGCTTACCTTTGGAAGGCCTCAGGTAGGCAGGGTTCTCCAGCAAGAGATGCCCTCACCTCCACTGCCAACCCTTAAATGAGGTCTGGGAAGGGGTGGATNNTGGTTCCACCCCTTCCNAGTCAGTCAGGTACATTACATGCATCTGAGCTCCCCGGGTTGGCCCTGCCTTCCCACCAGGTGCTCAATCACTGCTTCAGGCCATGACTTAGCATTTCCACTACAGCAGCATAGGTAAACAGTTGAACTAGATGACCATAGAGGTCTTTTCCAACCTTTATATGATCCTGTGAATCACAGTATAAAACAAGTAACTATGTGAATCCCCACTACCTCTGACTACATGATACTACCACTCTTAATTCTGTCAGCATTGAGTAAGTCAGAGGAAAGTCTAACCTCACTCCAAGTAGGATATAAGCCAAAAAACCTGTATAGTATGATACAGACTTCCCTTGAGAAGTAATAAGAGGCAGGAATATACAGTCCAGGTGTGCATCAGGATAAAGAGGGCAGCAGCTTCTTTGTATGTCAACTGTTAATTATAATGCATAAGCATTTTGGCTTAGCTGAGAGTGTCAGAACAGTGAGATGCAATTCATACATATGCAGTATTGTAACACAGCTTTTCTGTTACATTTTTCTTAG
Seq C2 exon
GAATTCTGATTCTGAAAAATCAACTAGAAGAATCAACAAAAGAAAATTTATTCCACCTGCCATGAGCCTGGTAGGCAAAAAGACCTATGGATCTGTCAGCACTGAAGTGGCAATGGAACTAGCTGAAAAGATGATCCTGACGTTCTCATTGAATCCAGATCAAGCTATGTCTCTGATTCACATAGCTCAGATGATGACCTCACATGAAAATATGAAACCAGCGGAAGAACATCAGATTTTCCCTATCACAATCATACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012068:ENSGALT00000019715:7
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=0.011
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF130861=AAA_11=PU(16.4=43.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCCTTGCTAGTTTGTAATGCCA
R:
ATCTGATGTTCTTCCGCTGGT
Band lengths:
342-1290
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]