Sequence
atgc intronic sequence ATGC exonic sequence...ttttgcttttgttcttgctgtcaaagaatacatcctttccaccttggccaatttactcatgaggtatatgaaaaattattttcacttgtttgtttctcagGAGGGCACAATCTTCTTATTCTTGCACGTGATCTCGGTCATTACATACAACTTGGGACCACAATAGATGATGCGATTGGTGAGGCATATGACAAGACAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g00390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os12g29990.2 (Oryza sativa), 3'ss of exon 6
ttttgcttttgttcttgctgt-caaagaatacatcctttccaccttggccaatttactcatgaggtatatgaaaaattattttcacttgtttgt-ttctcagGAGGGCACAATCTTCTTATTCTTGCACGTGATCTCGGTCATTACATACAACTTGGGACCACAATAGATGATGCGATTGGTGAGGCATATGACAAGACAGC
| |||| | | | | | | | | | || | |||| ||||| || | | | | | || | || ||| | | |||||||| |||||||||||| ||||||| | || || ||||| || | ||||| || || |||||||||||||| ||||||||||| ||||||||| ||||
-tgtgctaatacaacagatatacttatgttgaaacattacgtgtttggtgaattttcttttatgacgttcgggcagctaccta-accagttaatatgttcagGAGGACACAATCTTCTTGTTCTTGCTCATGGACTTGGTCAATATGTTCAACTGGGAACTACAATAGATGATGCAATTGGTGAGGCTTATGACAAGTCAGC
upper sequence: Vv15s0048g00390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G420055_T01 (Zea mays), 3'ss of exon 3
ttttgcttttgttcttgctgtcaaagaatacatcctttccaccttggccaatttactcatgaggtatatga-aaaattat--tttcacttgtttgtttctcagGAGGGCACAATCTTCTTATTCTTGCACGTGATCTCGGTCATTACATACAACTTGGGACCACAATAGATGATGCGATTGGTGAGGCATATGACAAGACAGC
| | ||| | || | | | | | || || ||| || | || |||||| | | |||||| | |||||||| ||||| |||||| |||| || | || ||| || |||||||| ||||| ||||| || |||||||||||||||||||||||||||||||| ||||
--cggtagaggaagaagcttgaccatcttatagacgtgtcggatccttcaccacgctagtgac-tacacgacaaaattgtaacccctcttgttatatgttcagGAGGACACAACCTTCTTGTTCTCGCTCATGGTCTTGGGCATTACATTCAACTGGGGACTACTATAGATGATGCGATTGGTGAGGCATATGACAAATCAGC
upper sequence: Vv15s0048g00390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G33720.1 (Glycine max), 3'ss of exon 7
ttttgcttttgttcttgctgtcaaagaatacatcctttccaccttggccaatttactcatgaggtatatgaaaaattattttcacttgt-----ttgt-ttctcagGAGGGCACAATCTTCTTATTCTTGCACGTGATCTCGGTCATTACATACAACTTGGGACCACAATAGATGATGCGATTGGTGAGGCATATGACAAGACAGC
| ||| |||| | || |||| | | || || | | ||| | | | | | || | |||||| |||| || ||| || |||||| | || ||||||| |||||||| || || |||||||||||||| || ||||||||| |||| || |||||||||||||||||||||||
-----ccagtgta-ttgcaaacctgtgatttgatacgaccactgctgactatatattttttaggaacaaaatacactaggctaacttgtgtgagttgtatttatagGGGGACACAATGTACTCGTTCTTGCTCGTGATCTTGGGCAGTACATACAACTTGGAACTACAATAGATAATGCTATCGGTGAGGCATATGACAAGACAGC
upper sequence: Vv15s0048g00390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G03250.1 (Glycine max), 3'ss of exon 6
ttttgcttttgt-tcttgctgtcaaagaatacatcctttccaccttggccaatttactcatgaggtatatgaaaaattattttcacttgt-----ttgt-ttctcagGAGGGCACAATCTTCTTATTCTTGCACGTGATCTCGGTCATTACATACAACTTGGGACCACAATAGATGATGCGATTGGTGAGGCATATGACAAGACAGC
| || | |||| | || |||| | | || || | | ||||| | | | | || | |||||| |||| || ||| || |||||| | || ||||||| |||||||| || || |||||||||||||| || || ||||||||||| || |||||||||||||||||||||||
------tccagtgtattgcaaacttgtgatttgatacagccactgctgactatatatttttcaggtaca-aatacactaggctaacttgtgggaattgtatttatagGGGGACACAATTTACTCGTTCTTGCTCGTGATCTTGGGCAGTACATACAACTTGGAACTACGATAGATGATGCTATCGGTGAGGCATATGACAAGACAGC
upper sequence: Vv15s0048g00390.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G45270.1 (Arabidopsis thaliana), 3'ss of exon 6
-----------------------------------------ttttgcttttgttcttgctgtcaaagaatacatcctttccaccttggccaatttactcatgaggtatatgaaaaattattttcacttgtttgtttctcagGAGGGCACAATCTTCTTATTCTTGCACGTGATCTCGGTCATTACATACAACTTGGGACCACAATAGATGATGCGATTGGTGAGGCATATGACAAGACAGC
| | | || || | | || || | || || |||| | | ||| | | || | ||| || ||| ||| | | |||||||||||||||||| ||||||| | | | || ||||| |||| |||||||||||| ||| |||||||||| || |||||||||| ||||||||||||
gtattgcaaaatcagttaagtttaatgtaagtgagaaactatcatcttagtgaagttattcttaagcaaaa--tcagtttcaccgtagg-gattaggtttctatctaaactgaaacgccccttttctttttttctatttagGAGGGCACAATCTTCTAGTTCTTGCGCATAAGCTTGGTCAGTACACACAACTTGGGACTACAGTAGATGATGCTATAGGTGAGGCATTTGACAAGACAGCMapped 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|71873501|gb|DT022556.1|DT022556EST: GTTAATTGAAAAAGACTTGCAATTTCCTTTCATGGCCCTGCTCATTTCAG GAGGGCACAATCTTCTTATTCTTGCACGTGATCTCGGTCATTACATACAAC
genomic: GTTAATTGAAAAAGACTTGCAATTTCCTTTCATGGCCCTGCTCATTTCAGgtaaaatttt ... tgtttctcagGAGGGCACAATCTTCTTATTCTTGCACGTGATCTCGGTCATTACATACAAC
EST:
gi|71867429|gb|DT016484.1|DT016484EST: GTTAATTGAAAAAGACTTGCAATTTCCTTTCATGGCCCTGCTCATTTCAG GAGGGCACAATCTTCTTATTCTTGCACGTGATCTCGGTCATTACATACAAC
genomic: GTTAATTGAAAAAGACTTGCAATTTCCTTTCATGGCCCTGCTCATTTCAGgtaaaatttt ... tgtttctcagGAGGGCACAATCTTCTTATTCTTGCACGTGATCTCGGTCATTACATACAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggccaatttactcatgaggtatatgaaaaattattttcacttgtttgtttctcagGAGGGCACAATCTTCTTATTCTTGCACGTGATCTCGGTCATTACATACAACTTGGGACCACAATAGATGATGCGATTGGTGAGGCATATGACAAGACAGC
cttgtttgtttctc CT-rich tract
tatatgaaaaattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgcttttgttcttgctgtcaaagaatacatcctttccaccttggccaatttactcatgaggtatatgaaaaattattttcacttgtttgtttctcagGAGGGCACAATCTTCTTATTCTTGCACGTGATCTCGGTCATTACATACAACTTGGGACCACAATAGATGATGCGATTGGTGAGGCATATGACAAGACAGC
- - - - - -ttcttgc
- - - - - - - - - - -caaagaa
- - - - - - - - - - - - - - - - -cctttcc
- - - - - - - - - - - - - - - - - - - - - cttggcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaaaaa