BtaINT0038698 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008963 | CIT
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1N747]
Coordinates
chr17:57974403-57975838:+
Coord C1 exon
chr17:57974403-57974572
Coord A exon
chr17:57974573-57975757
Coord C2 exon
chr17:57975758-57975838
Length
1185 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
TCTCTTTCACATGTGAAAAGAAA
3' ss Score
1.84
Exon sequences
Seq C1 exon
ATGTCCCCTATGTCCTGAAGATGGAGTCTCACCCCCATACCACCTGCTGGCCTGGGAGGACCCTCTACTTGCTGGCTCCCAGCTTTCCCGACAAGCAGCGCTGGGTCACCGCCTTAGAGTCAGTTGTGGCAGGTGGGAGAGTGTCTAGGGAAAAGGCGGAAGCCGACGCT
Seq A exon
GTGAGTATGCACGCGGGCCAGAGCTTGTGTTTGTAGAGGGGGCTGACTGGGTGGGGGTCCCTTCAGCCTCCCCCTCTGAAGGGTGATGGGATTGTGTGCCCCTAGAGATCCAGGCTTCCAGGCAGGGTCTGGCCTCACAGGTCCCCCCGCCCGAACCCTCTAGAATGAGGGATTCGCCACCATTAGCCAGCTCTTCAGGGCATACTAGGTCTCAGTTCTGGCAGCACAGCTGCAAATTACTTAGAAGGAAATGCTCTCTCTCCTTTACCCAGATGTGTTTACGTGGTTCAAAGGCTTGTGTTACAAGCAGCACAAAGGGCTGCCGAAAGCCATGTCTCTTTCAGGAAGCTTTTTCATAACCTGCTCAATTGCTTTTACGTGATCTGCTCTTCCAAAGGCAGGTCTGAAATCCTACTTCTCCTGAAGATGTTAGAGACGTGGGTAGGCCTTGATTGGCATCACTCCTCCTGGAACATTCCAGGATACAAACAGTGCTCATCACACACTGGCATTTCCACCACCAAAGCCCCAACAGCTCTTTTCAAACACTTAGCTCCTAATAAACACTTTAAGTGTTAGCAGTCGGAAGTCCTTAGCCACCAGCCTCCCTCTCACGAGAAAGCGCTGTGTTGATGACCCATCTCCCACGTGTGAGCCTTTAACTGAACGCCCCATCCATGTGTGTACAATAGGGCCGTGACTGTACTTCCTACGAGCCTCTGCCCGCGTGGGCTCAGGTAAAGAGACTCAGGAGCTGGTTGATTTGCCACTGACACTGGGCTTTGCACTTGTGCTGACGCCTGGAGGGGCAGGAGCGTCCACCTGTGGCTTATTAACCCTTTGCAGTGACACCCTTCAGCTTTGGCTTGTTTTGTGTGACAGAATCTATGTCTCCTGTGCTCATTTAGTTATGCATCTAAACCCAGTTATGTCCCCGACGCTAATTAACCACCACCCAGAGACACCAGTAACATTCAGGTCCTGCCTTTTGAACTCAGATCAAAGTAGGGGGCAAATCAGGAGCAGGTGTGTGCTTCTGAGTGTCTGCGGGAGTAACTTGCCCTTCTCCCTGGCATTAAACTTTCCTCTGTTCTTGCTTTTGTCTCTCTGGACAGTTCAGTCACGAACAGTTCAGCCTCACTGTGGCCTCCTTTTTTCTCTCTCTTCTCTTTCACATGTGAAAAG
Seq C2 exon
AAATTGCTCGGAAACTCCCTGTTGAAACTGGAAGGTGATGACCGTCTGGACATGAACTGCACGCTGCCCTTCAGCGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008963:ENSBTAT00000061505:41
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0016924=PH=PD(35.8=75.4)
A:
NA
C2:
PF0078017=CNH=PU(2.2=22.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCCCTATGTCCTGAAGATGGA
R:
GTGCAGTTCATGTCCAGACGG
Band lengths:
230-1415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development