BtaEX0008975 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000008028 | CHN1
Description
Bos taurus chimerin (chimaerin) 1 (CHN1), transcript variant 2, mRNA. [Source:RefSeq mRNA;Acc:NM_001113247]
Coordinates
chr2:21954221-22033680:+
Coord C1 exon
chr2:21954221-21954334
Coord A exon
chr2:21997341-21997629
Coord C2 exon
chr2:22033603-22033680
Length
289 bp
Sequences
Splice sites
3' ss Seq
TTCCCATTTCATTGAGGCAGATT
3' ss Score
2.52
5' ss Seq
AGGGTAAGC
5' ss Score
9.04
Exon sequences
Seq C1 exon
GTTTCACGGCATGATCTCCCGAGAAGCTGCAGACCAGCTCTTGAGTGTAGCTGAGGGGAGCTACCTCATTCGGGAGAGCCAGCGTCAGCCAGGAACCTACACTTTGGCTTTAAG
Seq A exon
ATTTGGAAGTCAAACCAGAAACTTCAGGCTCTACTACGATGGAAAGCACTTTGTTGGGGAGAAGCGCTTTGAGTCCATCCACGATCTGGTGACTGATGGATTGATTACTCTCTATATTGAAACCAAGGCAGCAGAATACATTGCCAAGATGACGATAAACCCAATTTATGAGCACATAGGATACACAACCTTAAACAGAGAGCCAGCATACCAAAAACATATGCCAGTCCTGAAAGAGACACTTGATGAGAAAGATTCTACAGGCCAGGATGGGGTGTCAGAGAAAAGG
Seq C2 exon
TTGACATCACTTGTTAGAAGAGCAACTCTGAAAGAAAACGAACAAATTCCAAAATATGAAAAGGTCCACAATTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008028_MULTIEX1-4/7=3-6
Average complexity
C1
Mappability confidence:
80%=80=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=0.175 C2=0.000
Domain overlap (PFAM):
C1:
PF0001719=SH2=PU(53.5=97.4)
A:
PF0001719=SH2=PD(45.1=33.0),PF0231811=FYVE_2=PU(10.7=12.4)
C2:
PF0231811=FYVE_2=FE(22.3=100),PF0013017=C1_1=PU(5.7=11.5)
Main Skipping 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:
GTTTCACGGCATGATCTCCCG
R:
AAATTGTGGACCTTTTCATATTTTGG
Band lengths:
188-477
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development