Sequence
atgc intronic sequence ATGC exonic sequenceTCGTATCGCCCGCTTCCTCAAAGCTGGCAAGTACGCCGAGCGCGTCGGCGCCGGCGCTCCGGTCTATCTTGCAGCCGTCCTCGAGTATCTTGCTGCCGAGgtatgtttgatgtttctctctgagatttctcaggcggtttctttgttcgctcgtatgaactcctgttttgtggctgaaaaaacggaggaaggagagagac...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0868g00020.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os08g33100.1 (Oryza sativa), 5'ss of exon 1
TCGTATCGCCCGCTTCCTCAAAGCTGGCAAGTACGCCGAGCGCGTCGGCGCCGGCGCTCCGGTCTATCTTGCAGCCGTCCTCGAGTATCTTGCTGCCGAGgtatgtttgatgtttctctctgagatttctcaggcggtttctttgttcgctcgtatgaactcctgttt--tgtggctgaaaaaacggaggaaggagagagac
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CAGGATCGCCCGCTTCCTCAAGGCCGGCAAGTACGCCGAGCGCGTCGGCGCCGGCGCCCCCGTCTACCTCGCCGCCGTCCTCGAGTACCTCGCCGCCGAGgtacgccacgcatggacgcactcgaattcgtggtcggattg---gattggatggatgaattcgggctgaatttcgtttggggatttttgaattctcgcag--
upper sequence: Vv00s0868g00020.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os12g25120.1 (Oryza sativa), 5'ss of exon 1
TCGTATCGCCCGCTTCCTCAAAGCTGGCAAGTACGCCGAGCGCGTCGGCGCCGGCGCTCCGGTCTATCTTGCAGCCGTCCTCGAGTATCTTGCTGCCGAGgtatgt-ttgatgtttctctctgagatttctcaggcggtttctttgttcgctcgtatgaactcctgttttgtggctgaaaaaacggaggaaggagagagac---
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GAGGATCGCCAGGTTCCTCAAGGCCGGCAAGTACGCCGAGCGCGTCGGCGCCGGCGCTCCCGTCTACCTCGCCGCCGTCCTCGAGTACCTCGCCGCCGAGgtattcgctcctgtacccacccg----ttctcggattggatctgatttgatggcgattgatttggggatctaggtcgccattgtctccgtgttcttggatccgt
upper sequence: Vv00s0868g00020.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os07g36140.1 (Oryza sativa), 5'ss of exon 1
TCGTATCGCCCGCTTCCTCAAAGCTGGCAAGTACGCCGAGCGCGTCGGCGCCGGCGCTCCGGTCTATCTTGCAGCCGTCCTCGAGTATCTTGCTGCCGAGgtatgtttgatgtttctctctgagatttctcaggcggtttctttgttcgctc--gtatgaactcctgttttgtggctgaaaaaacggaggaaggagagagac
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CAGGATCGCCCGGTTCTTGAAGGCCGGCAAGTACGCCGAGAGGGTCGGCGCCGGCGCCCCGGTCTACCTCGCCGCCGTCCTCGAGTACCTCGCCGCTGAGgtatgttcgat-tctgttcctcctatttcttgattttggtttttgcgcggtgaaatttgggcggggggttcgcggttacagaattgggggtagaattttag-
upper sequence: Vv00s0868g00020.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os07g36130.1 (Oryza sativa), 5'ss of exon 1
TCGTATCGCCCGCTTCCTCAAAGCTGGCAAGTACGCCGAGCGCGTCGGCGCCGGCGCTCCGGTCTATCTTGCAGCCGTCCTCGAGTATCTTGCTGCCGAGgtatgtttgatgtttctctctgagatttctcaggcggtttctttgttcgctcgtatgaactcctgttttgtg-gctgaaaaaacggaggaaggagagagac-------
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CAGGATCGCGAGGTTCCTCAAGGCCGGGAAGTACGCCGAGCGCGTCGGCGCCGGGGCCCCCGTCTACCTCGCCGCCGTCCTCGAGTACCTCGCCGCTGAGgtatgcgtcg-gtgtgatttggggatttttt------tctgttcgtccgatc-taggcgatgttatttcgggtgttgttagatttgtttcagtttggttcgtcgatta
upper sequence: Vv00s0868g00020.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G042047_T01 (Zea mays), 5'ss of exon 1
TCGTATCGCCCGCTTCCTCAAAGCTGGCAAGTACGCCGAGCGCGTCGGCGCCGGCGCTCCGGTCTATCTTGCAGCCGTCCTCGAGTATCTTGCTGCCGAGgtatgtttgatgtttctctctgagatt-tctcaggcggtttctttgttcgctcgtatgaactcctgttttgtggctgaaaaaacggaggaaggagagagac
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AAGGATCGCCAGGTTCCTCAAGGCCGGCAAGTACGCCGAGAGGGTCGGCGCCGGCGCCCCCGTCTACCTCGCTGCCGTGCTCGAGTATCTTGCTGCTGAGgtaaagaagacttccaattttgcggtggtagtgttcgatttggttttgagcactaggaattttgggtcctgtggtttcctgt-cgtggaaattgcctggat
upper sequence: Vv00s0868g00020.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G151826_T01 (Zea mays), 5'ss of exon 1
TCGTATCGCCCGCTTCCTCAAAGCTGGCAAGTACGCCGAGCGCGTCGGCGCCGGCGCTCCGGTCTATCTTGCAGCCGTCCTCGAGTATCTTGCTGCCGAGgtatgtttgatgtttctctctgagatttctcaggcggttt-ctttgttcgctcgta--tgaactcctgttttgtggctgaaaaaacggaggaaggagagagac
| ||||| || |||||||| || |||||||||||||||||||| ||||||||||| || ||||| || ||||| ||||||||||| || || || ||||| || ||||| | | || | |||| ||| | | || || |||| | | || | || | | || || ||
CAGGATCGCTCGGTTCCTCAAGGCCGGCAAGTACGCCGAGCGCGTGGGCGCCGGCGCCCCTGTCTACCTCGCAGCTGTCCTCGAGTACCTCGCCGCTGAGgttcgtgccccgtttccatttcgccttaactgtggggttcgcttcgggtccctgtcgctgccgtcctatctggttgttgctccgtctgcggtgcgacagc---
upper sequence: Vv00s0868g00020.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G151726_T02 (Zea mays), 5'ss of exon 1
TCGTATCGCCCGCTTCCTCAAAGCTGGCAAGTACGCCGAGCGCGTCGGCGCCGGCGCTCCGGTCTATCTTGCAGCCGTCCTCGAGTATCTTGCTGCCGAGgtatg-------tttga---tgtttctctctgagatttctcaggcggtttctttg------------ttcgctcgtatgaactcctgttttgtggctgaaaaaacggagg--aaggagagagac----------------
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AAGGATCGCCAGGTTCCTCAAGGCCGGCAAGTATGCCGAGAGAGTCGGCGCCGGCGCCCCTGTCTACCTCGCTGCCGTGCTCGAGTATCTTGCTGCTGAGgtaaagaaggcttccgattttgtggctattggctaattcttttatttttgttttgagcattgaaaatttggctgctggggtttcctttttctttttatataaaatgggtgttaattgctgaaattactgaattgaagtag
upper sequence: Vv00s0868g00020.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G151726_T01 (Zea mays), 5'ss of exon 1
TCGTATCGCCCGCTTCCTCAAAGCTGGCAAGTACGCCGAGCGCGTCGGCGCCGGCGCTCCGGTCTATCTTGCAGCCGTCCTCGAGTATCTTGCTGCCGAGgtatgtttgatgtttctctctgagatttctcaggcggtttctttgttcgctcgtatgaactcctgttttgtggctgaaaaaacggaggaaggagagagac--
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AAGGATCGCCAGGTTCCTCAAGGCCGGCAAGTATGCCGAGAGAGTCGGCGCCGGCGCCCCTGTCTACCTCGCTGCCGTGCTCGAGTATCTTGCTGCTGAGgtaaagaaggcttccgattttgtggctatt--ggctaattcttttatttttgttttgagcattgaaaatttggctgctggggtttcctttttctttttatat
upper sequence: Vv00s0868g00020.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G041381_T01 (Zea mays), 5'ss of exon 1
TCGTATCGCCCGCTTCCTCAAAGCTGGCAAGTACGCCGAGCGCGTCGGCGCCGGCGCTCCGGTCTATCTTGCAGCCGTCCTCGAGTATCTTGCTGCCGAGgtatgtttgatgtttctctctgagatttctcaggcggtttc--tttgttc---gctcgtatgaactcctgttttgtggctgaaaaaacggaggaaggagagagac
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CAGGATTGCTAGGTTCCTCAAGGCGGGCAAGTACGCTGAGCGCGTCGGCGCCGGCGCCCCCGTGTACCTCGCCGCCGTCCTCGAGTACCTCGCGGCTGAGgtttgtgccccgcttcgttttctttcccctctccttgttgcgattcgcttcgggtccgcgtcg-ctgcggtctcggatctggttgttttgccgtggaggat----Mapped 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|110422576|gb|EC988902.1|EC988902EST: CCGGCGCTCCGGTCTATCTTGCAGCCGTCCTCGAGTATCTTGCTGCCGAG GTACTGGAATTGGCTGGGAACGCAGCGAGAGACAACAAGAAAACCCGTATT
genomic: CCGGCGCTCCGGTCTATCTTGCAGCCGTCCTCGAGTATCTTGCTGCCGAGgtatgtttga ... tggcttacagGTACTGGAATTGGCTGGGAACGCAGCGAGAGACAACAAGAAAACCCGTATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCGTATCGCCCGCTTCCTCAAAGCTGGCAAGTACGCCGAGCGCGTCGGCGCCGGCGCTCCGGTCTATCTTGCAGCCGTCCTCGAGTATCTTGCTGCCGAGgtatgtttgatgtttctctctgagatttctcaggcggtttctttgttcgctcgtatgaactcctgttttgtggctgaaaaaacggaggaaggagagagac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaggaga