Sequence
atgc intronic sequence ATGC exonic sequence...aaaatgttctgaatatgaagatcaacatgtgaaatcatttgaagcaataaaaatttcttatgtgatttttgaagcccctgactctggatctatgctatagGTGGTATGATGTCATTAATGGTCAAGTCCAAGACTGGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g47080.1 (Oryza sativa), 3'ss of exon 3
aaaatgttctgaatatgaagatcaacatgt-----gaaatcattt-gaagcaataaaaatttcttatgtgatttttgaagcccctgactctggatctatgctatagGTGGTATGATGTCATTAATGGTCAAGTCCAAGACTGGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGT
| || | | |||| | ||| || || | || || | ||| || | ||||| |||| | | | || | || ||||||| |||||||| || ||||||||||||| |||| |||||| || |||||||||||| ||||||| || ||||| || || || | || || |||||
--cttcttttctgctttgagatgattgtgtattctgatataacttcgattctatacggtttcatgatgtgcttttattgatcgat-atgttgataccatt---tagGTGGAATGATGTCGTTGTTGGTCAAGTCCAAAACTGAAGATTCGGTAAAATGTGAAGTTATTGATGGAGGTGAACTGAAATCCAGGCGTCACCTGAATGT
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G152686_T01 (Zea mays), 3'ss of exon 3
-aaaatgttctgaatatgaagatcaaca-tgtgaaatcatttgaagca-ataaaaatttcttatgtgatttttgaagcccctgactctggatctatgctatagGTGGTATGATGTCATTAATGGTCAAGTCCAAGACTGGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGT
| | | || | | ||| || | | | || | | || || | | | ||||| || | || | || ||| || | |||| || ||||||||||| ||||||| || || |||| |||||| ||||||||||||||| |||| ||||| ||| | || ||||| | ||||| |||||
ttagaggcccttt-cacagatatcttcagtcttgactcttgtcaaatgtatctttggtggtca-atgattgtttttcacgttgccattgaatcaatttt-tagGAGGAATGATGTCATTCTTGGTCAAATCAAAAACTGAAGATTCTGTGAAATGTGAAGTTATTGACGGTGGTGAATTGAAATCTAGGCGCCATCTGAATGT
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G37210.1 (Glycine max), 3'ss of exon 3
----aaaatgttctgaatatgaagatcaacatgtgaaatcatttgaagcaataaaaatttcttatgtgatttttgaagcccctgactctggatctatgctatagGTGGTATGATGTCATTAATGGTCAAGTCCAAGACTGGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGT
| || | ||| || | | | | | | | | | | | ||| | || | | | ||||| || ||| | | |||| | |||||||||||||||| || |||| ||||| ||||| | ||||| ||||||||||||||||||||||| ||||| |||||||| || || ||| | |||||
atttagcat-tactgttgttggacaatatctttagtatcctgtatatctcagaaagagttaatgccaggtctttgatgcat---actatttgtgtatgatgtagGTGGTATGATGTCTTTGGTGGTTAAGTCTAAGACAGAGGATTCTGTGAAATGTGAAGTTGTTGATGGAGGAGAGCTCAAGTCAAGGAGACATTTGAATGT
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G30430.1 (Glycine max), 3'ss of exon 3
aaaatgttctgaatatgaa-gatcaacatgt---gaaatcatttgaagcaataaaaatttcttatgtgatttttgaagcccctgactctggatctatgctatagGTGGTATGATGTCATTAATGGTCAAGTCCAAGACTGGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGT
|| | | || || | | ||| || | | | | || | ||| | || || | | ||||| | ||| | | |||| | |||||||||||||||| || |||| ||||| ||||| | ||||| ||||||||||||||||||||||| ||||| |||||||| || || ||| | |||||
-ttatatatttaacattattgggcaatatctttagtatcctatttatcttggaaagagttaataccgggtctttgatgtat---actatttgtgtatgatgtagGTGGTATGATGTCTTTGGTGGTTAAGTCTAAGACAGAGGATTCTGTGAAATGTGAAGTTGTTGATGGAGGAGAGCTCAAGTCAAGGAGACATTTGAATGT
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G28980.1 (Glycine max), 3'ss of exon 3
aaaatgttctgaatatgaagatcaacatgtgaaatcatttgaagcaataaaaatttctta-tgtgatttttgaagcccctgactctg-gatctatgctatagGTGGTATGATGTCATTAATGGTCAAGTCCAAGACTGGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGT
|| | || ||| | ||| || |||| | | | || | || || | | || | | | | || ||||| ||| | || |||||||||||||||| | | || ||||| ||||| | ||||| ||||||||||||||||||||||| ||||| |||||||| || | ||| | || ||
cttatagt-tgtata-atatatccacttgtgttttgttcttaaaaggttggaacttttgagtgaaaaaggtaatgattcttactctttgatgtgtgacgtagGTGGTATGATGTCTATGGTTGTTAAGTCTAAGACAGAGGATTCTGTGAAATGTGAAGTTGTTGATGGAGGAGAGCTCAAGTCAAGGCGACATTTGAACGT
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G23150.1 (Glycine max), 3'ss of exon 3
----aaaatgttctgaatatgaagatcaacatgtgaaatcatttgaagcaataaaaatttcttatgtgatttttgaagcccctgactctggatctatgctatagGTGGTATGATGTCATTAATGGTCAAGTCCAAGACTGGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGT
| ||| | |||| | | | | || || | ||| | || ||| || | | | | | ||| || | ||||||||||||||||| | | || ||||| ||||| ||||| ||||||||||||||||||||||| ||||| |||||||| || | ||| | || ||
tttatagttgtacaatatatccac-ttgtcttttgttattaaaaaaag-gtttgaacttttgagtgaaaaggtaatgatgcttactctttgat--gtgatgtagGTGGTATGATGTCAATGGTTGTTAAGTCTAAGACAAAGGATTCTGTGAAATGTGAAGTTGTTGATGGAGGAGAGCTCAAGTCAAGGCGACATTTGAACGT
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G24270.1 (Glycine max), 3'ss of exon 3
aaaatgttctgaatatgaagat-caacatgtgaaatcatttgaagcaataaaaatttcttatgtgatttttgaagcccctgactctg---gatctatgctatagGTGGTATGATGTCATTAATGGTCAAGTCCAAGACTGGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGT
| || || | | ||| | ||| | ||| | |||| | | | ||||| | | || | ||| | | | || | || |||||||||||| | | || ||||| | ||| ||||| |||||||||| |||||||||||| ||||| |||||||| ||
----catcctacatttcatgattctacacatcaaaaaaggatgttggataagagagctgcaactctgttttgtgccacatggccctgtgtgctatttgggaaagATGGTATGATGTCTATGGTTGTTAAGTCTACGACAAAGGATTCTGTGAAATGTGCAGTTGTTGATGGAGGAGAGCTCAAGTCAAG---------------
upper sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G52920.1 (Arabidopsis thaliana), 3'ss of exon 3
aaaatgttctgaatatgaagatcaacatgtgaaatcatttgaagcaataaaaatttcttatgtgatttttgaagcccc--tgactctggatctatgctatagGTGGTATGATGTCATTAATGGTCAAGTCCAAGACTGGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGT
| || | | | | || || | | | | | | | ||| || ||| | || | || ||||| | |||||||||||||||| || ||||| ||||| ||||| ||| || || ||||||||||||||||||||||||||||| ||||| || || || || |||||
----------gtatgtacatcttattatttgg---tgtacaagggttttacatctgctttagtcttttccaatatattgatggcgcttttactatgttgtagGTGGTATGATGTCGTTTATGGTGAAGTCAAAGACCAAAGACTCTGTCAAATGTGAAGTTGTTGATGGTGGAGAACTTAAGTCAAGGAGACACCTGAATGTMapped 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|110688927|gb|EE068039.1|EE068039EST: TGATGATTTTGTCAATGATGTAGAAATGGGCGACATGCTTCTCGTGGATG GTGGTATGATGTCATTAATGGTCAAGTCCAAGACTGGAGATTCAGTGAAAT
genomic: TGATGATTTTGTCAATGATGTAGAAATGGGCGACATGCTTCTCGTGGATGgtatgaaacc ... tatgctatagGTGGTATGATGTCATTAATGGTCAAGTCCAAGACTGGAGATTCAGTGAAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataaaaatttcttatgtgatttttgaagcccctgactctggatctatgctatagGTGGTATGATGTCATTAATGGTCAAGTCCAAGACTGGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGT
ccctgac putative branch site (score: 3)
aaatttcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaatgttctgaatatgaagatcaacatgtgaaatcatttgaagcaataaaaatttcttatgtgatttttgaagcccctgactctggatctatgctatagGTGGTATGATGTCATTAATGGTCAAGTCCAAGACTGGAGATTCAGTGAAATGTGAAGTTGTTGATGGTGGAGAACTCAAGTCTAGAAGGCATCTAAATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
aaaatgt
- - - - - -aatatgaa
- - - - - - - - - - - caacatg
- - - - - - - - - - - - - - - -aaatcat
- - - - - - - - - - - - - - - - - - - - - - -aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccctgac