Sequence
atgc intronic sequence ATGC exonic sequence...tgtcctttaaaaatctgctagcagcaaaattttcctaacctgtcaactgaacttaaaaaattaggatctctaaccacgccttgggttgcacctcatgtagGTAGCGCTGGTGACGTCTTGGAAGACAATCCAGTGGGAAGGTTGAAAGTTTTTGTTTATGAACTTCCAAGTAAATACAACAAGAAGATTCTGCAAAAGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g32110.1 (Oryza sativa), 3'ss of exon 1
tgtcctttaaaaatctgctagcagcaaaattttcctaacctgtcaactgaacttaaaaaattaggatctctaaccacgccttgggttgcacct----catgtagGTAGCGCTGGTGACGTCTTGGAAGACAATCCAGTGGGAAGGTTGAAAGTTTTTGTTTATGAACTTCCAAGTAAATACAACAAGAAGATTCTGCAAAAGGA
| | | | || | | | | || | || ||| | ||| || ||| | | | || | | | || ||| || |||||||| || | |||||||||||||| || ||||||| |||||||||||||| | ||||| || || ||||||| ||| | |||||
--ttatattataacttcatgactg--gttttcttggaatctgcttatcagttttatgaagatagtactatgtgcttctactcaaccaagatcattgacctgcagGAAGTGCTGGTGATGTGCTAGAAGACAATCCAGTTGGGCGGTTGAAGGTTTTTGTTTATGACTTGCCAAGCAAGTATAACAAGAGGATAGTCGCCAAGGA
upper sequence: Vv17s0000g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G023020_T01 (Zea mays), 3'ss of exon 1
tgtcctttaaaaatctgctagcagcaaaattttcctaacctgtcaact--gaacttaaaaaattaggatctctaaccacgccttgggttgcacct-----catgtagGTAGCGCTGGTGACGTCTTGGAAGACAATCCAGTGGGAAGGTTGAAAGTTTTTGTTTATGAACTTCCAAGTAAATACAACAAGAAGATTCTGCAAAAGGA
| |||||||| | | ||| | | |||| ||| | || || | | || | || ||| | |||||| || |||||||| || || ||||| ||||| ||||| |||||||| || || ||||||| | ||||| || |||||||||||||| | |||||
--atgtagaaaaatctcc-----atatgattgttttgctttgtctacttcatattttgttcatgtgtgttgcttgtgtggactgaaacagcaattatgaaactgtagGGAGTGCTGGTGATGTGTTAGAAGATAATCCTGTGGGTAGGTTGAAGGTCTTCATTTATGACTTACCAAGGAAGTACAACAAGAAGATGGTCACCAAGGA
upper sequence: Vv17s0000g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G33420.1 (Glycine max), 3'ss of exon 1
tgtcctttaaaaatctgctagcagcaaaattttcctaacctgtcaactgaacttaaaaaatta---ggatctctaaccacgccttg-ggttgcacctcatgtagGTAGCGCTGGTGACGTCTTGGAAGACAATCCAGTGGGAAGGTTGAAAGTTTTTGTTTATGAACTTCCAAGTAAATACAACAAGAAGATTCTGCAAAAGGA
| | ||| ||| | | | | | | || ||||||| |||| ||||| | |||| | ||| ||||| | | || |||||| |||||||| || |||||||| ||||||||||||||||||| ||||||||||||||||||||||||||||| || ||||| ||||||||||||||
cttacattagcaattctatttctggagatacattgta----gtcaactacactttttaaattctgcgtgaggctaaatgcatgttgtggttgaatcaattgcagGTAGTGCTGGTGATGTATTGGAAGATGATCCAGTGGGAAGGTTGAAGGTTTTTGTTTATGAACTTCCAAGTAAATATAATAAGAAAATTCTGCAAAAGGA
upper sequence: Vv17s0000g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G37920.1 (Glycine max), 3'ss of exon 1
tgtcctttaaaaatctgctagcagcaaaattt-tcctaacctgtcaactgaactta---aaaaattaggatctctaaccacgccttgggttgcacctcatgtagGTAGCGCTGGTGACGTCTTGGAAGACAATCCAGTGGGAAGGTTGAAAGTTTTTGTTTATGAACTTCCAAGTAAATACAACAAGAAGATTCTGCAAAAGGA
||| || || ||| | |||| | || | | | | | ||| ||||| | | |||| || | ||| ||| ||| |||||||||| |||||||| || || ||||| ||||||||||||||||||| ||||||||||||||||||||||| ||||| || ||||| ||||||||||||||
-gtcaaatacaagtctctaaattctgtgatttatttcaaaatat--attatagttaaataaaaaatgacactactaagcatgttctgg-ttgaaccaaatgtagGTAGTGCTGGTGATGTGTTAGAAGATGATCCAGTGGGAAGGTTGAAGGTTTTTGTTTATGAACTTCCAAGCAAATATAATAAGAAAATTCTGCAAAAGGA
upper sequence: Vv17s0000g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G17140.1 (Glycine max), 3'ss of exon 1
tgtcctttaaaaatctgctagcagcaaaattttcctaacctgtcaactgaacttaaaaaattaggatctctaaccacgccttgggttgcacctcatgtagGTAGCGCTGGTGACGTCTTGGAAGACAATCCAGTGGGAAGGTTGAAAGTTTTTGTTTATGAACTTCCAAGTAAATACAACAAGAAGATTCTGCAAAAGGA
||| | ||| |||| |||| || | | | | ||||||| | || |||| || | ||| ||| ||| |||||||||| |||||||| || || ||||| ||||||||||||||||||| ||||||||||||||||||||||| ||||| || ||||| ||||||||||||||
-gtctct--aaattctgtggttta------tttcaaaatatattatagttaaataaaaaaatgagactactaagcatgttgtgg-ttgaaccaaatgtagGTAGTGCTGGTGATGTATTAGAAGATGATCCAGTGGGAAGGTTGAAGGTTTTTGTTTATGAACTTCCAAGCAAATATAATAAGAAAATTCTGCAAAAGGA
upper sequence: Vv17s0000g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G61840.1 (Arabidopsis thaliana), 3'ss of exon 1
----tgtcctttaaaaatctg----ctagcagcaaaattt-tcctaacctgtcaactgaacttaaaaaattaggatctctaaccacgccttgggttgcacctcatgtagGTAGCGCTGGTGACGTCTTGGAAGACAATCCAGTGGGAAGGTTGAAAGTTTTTGTTTATGAACTTCCAAGTAAATACAACAAGAAGATTCTGCAAAAGGA
| |||| | |||| ||| || | || |||| | | | | ||||||| || | | |||| | | | || | ||||||| |||||||| || |||||||| |||| |||||||| ||||||| ||||||||||| |||||||||||||||||||||||||| || || |||||
agcattatctttcaggttctgtgattgagctacatagttaatccttgcttatgatgtgaactttaagtgt--gtatctgtttttttcttctctgatg-------tttagGTAGTGCTGGTGATGTGTTGGAAGATGATCCCGTGGGAAGACTGAAAGTCTTTGTTTATGAGCTTCCAAGTAAATACAACAAGAAGATACTTCAGAAGGAMapped 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|352791233|gb|FQ477518.1|FQ477518EST: GGTTGGTGCTGAGCAGCTCCGTCGGGGTCAACGTACTGAGCGAATCTCCG GTAGCGCTGGTGACGTCTTGGAAGACAATCCAGTGGGAAGGTTGAAAGTTT
genomic: GGTTGGTGCTGAGCAGCTCCGTCGGGGTCAACGTACTGAGCGAATCTCCGgttggctttt ... cctcatgtagGTAGCGCTGGTGACGTCTTGGAAGACAATCCAGTGGGAAGGTTGAAAGTTT
EST:
gi|110702747|gb|EE078988.1|EE078988EST: GGTTGGTGCTGAGCAGCTCCGTCGGGGTCAACGTACTGAGCGAATTTCCG GTAGCGCTGGTGACGTCTTGGAAGACAATCCAGTGGGAAGGTTGAAAGTTT
genomic: GGTTGGTGCTGAGCAGCTCCGTCGGGGTCAACGTACTGAGCGAATCTCCGgttggctttt ... cctcatgtagGTAGCGCTGGTGACGTCTTGGAAGACAATCCAGTGGGAAGGTTGAAAGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgaacttaaaaaattaggatctctaaccacgccttgggttgcacctcatgtagGTAGCGCTGGTGACGTCTTGGAAGACAATCCAGTGGGAAGGTTGAAAGTTTTTGTTTATGAACTTCCAAGTAAATACAACAAGAAGATTCTGCAAAAGGA
ctctaac putative branch site (score: 2)
ttaaaaaattaggat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtcctttaaaaatctgctagcagcaaaattttcctaacctgtcaactgaacttaaaaaattaggatctctaaccacgccttgggttgcacctcatgtagGTAGCGCTGGTGACGTCTTGGAAGACAATCCAGTGGGAAGGTTGAAAGTTTTTGTTTATGAACTTCCAAGTAAATACAACAAGAAGATTCTGCAAAAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - aaaaatc
- - - - - - - - gctagca
- - - - - - - - - - - - caaaatt
- - - - - - - - - - - - - - - - -cctaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccacgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgggttg