Sequence
atgc intronic sequence ATGC exonic sequence...cctgaaattgtttctccttaagaaaagttcttgggataattgtgtctctgacaattaattaattttcttcttgttccttgttgactgtttttgcttgcagTGTCGGGAAAAGAAGCGGTCATATACCCTACCGAGACTCAAAACTCACTCGCATATTGCAGCACTCACTTGGTGGGAATGCTCGTACTGCAATCATCTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g03290.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA07G10790.1 (Glycine max), 3'ss of exon 8
-------------------------cctgaaattgtttctccttaagaaaagt-tcttgggataattgtgtctctgacaatt----aattaattttcttcttgttccttgttgac-tgtttttgcttgcagTGTCGGGAAAAGAAGCGGTCATATACCCTACCGAGACTCAAAACTCACTCGCATATTGCAGCACTCACTTGGTGGGAATGCTCGTACTGCAATCATCTGC
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gtcaggatcactgttgtttacagaaagtttattgggttgttataatggcaaatatcatctagtagcagcattacaaatgagtactgagttcaccttcttctaactgcttgttttcatatcatcatatgcagTGTTGGAAAAAGAAGTGGTCATATACCTTACAGAGATTCAAAGCTCACACGTATATTGCAACATTCCCTTGGTGGGAATGCACGCACTGCAATTGTTTGT
upper sequence: Vv17s0000g03290.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA09G31270.1 (Glycine max), 3'ss of exon 8
-----------------------------cctgaaattgtttctccttaagaaaagttcttgggataattgtgtctctgacaattaat-------taattttcttcttgttccttgttgac-tgtttttgcttgcagTGTCGGGAAAAGAAGCGGTCATATACCCTACCGAGACTCAAAACTCACTCGCATATTGCAGCACTCACTTGGTGGGAATGCTCGTACTGCAATCATCTGC
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gtcaggatcactgttgtttacagaaagtttattgggttgtta-taatggcaaatatcacctagtagtgtagcaccatgagaaatgagtactgatttcaccttcttctaactgcttgttttcatatcatcatatgcagTGTTGGAAAAAGAAGTGGTCATATACCTTACAGGGATTCAAAGCTCACACGTATATTGCAACATTCCCTTGGTGGGAATGCACGCACTGCCATTGTTTGT
upper sequence: Vv17s0000g03290.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G18370.1 (Arabidopsis thaliana), 3'ss of exon 9
--cctgaaattgtttctccttaagaaaagttcttgggataattgtgtctctgacaattaattaattttcttcttgttccttgttga-ctgttt-ttgcttgcagTGTCGGGAAAAGAAGCGGTCATATACCCTACCGAGACTCAAAACTCACTCGCATATTGCAGCACTCACTTGGTGGGAATGCTCGTACTGCAATCATCTGC
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gtactgtacttacatattttctgagaga----ttaaaat--ctcaatctcaaatactttttaagtaagaaacttatttaatctgaatctgtgaactcttcatagTGTGGGGAAAAGAAGCGGCCATATACCTTACAGAGACTCCAAGCTTACTAGGATTTTACAGCATTCACTAGGTGGGAATGCTCGAACAGCCATTATATGTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|110687709|gb|EE065429.1|EE065429EST: CACATTAACCTTAGCTTGATGACTCTCACAACTGTAATCAGAAAACTCAG TGTCGGGAAAAGAAGCGGTCATATACCCTACCGAGACTCAAAACTCACTCG
genomic: CACATTAACCTTAGCTTGATGACTCTCACAACTGTAATCAGAAAACTCAGgtcagaaatg ... ttgcttgcagTGTCGGGAAAAGAAGCGGTCATATACCCTACCGAGACTCAAAACTCACTCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctgacaattaattaattttcttcttgttccttgttgactgtttttgcttgcagTGTCGGGAAAAGAAGCGGTCATATACCCTACCGAGACTCAAAACTCACTCGCATATTGCAGCACTCACTTGGTGGGAATGCTCGTACTGCAATCATCTGC
tgttgac putative branch site (score: 3)
tttttgctt putative PPT
aattaattaattttct TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctgaaattgtttctccttaagaaaagttcttgggataattgtgtctctgacaattaattaattttcttcttgttccttgttgactgtttttgcttgcagTGTCGGGAAAAGAAGCGGTCATATACCCTACCGAGACTCAAAACTCACTCGCATATTGCAGCACTCACTTGGTGGGAATGCTCGTACTGCAATCATCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - tttctcc
- - - - - - - - - -aagaaaa
- - - - - - - - - - - - - -ttcttgg
- - - - - - - - - - - - - - - - - - - - - - - -ctgacaa