Sequence
atgc intronic sequence ATGC exonic sequenceAAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCAACCACCCTCTCTGCACAGGTCACTATGCTACAGgtatgggctatacaggaggattgtacatgacctgagcaagacctcaatcttttatatccaatgaacacctgaattaatgtcaatgtggatttattgtgca...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0076g00330.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os12g06520.1 (Oryza sativa), 5'ss of exon 2
AAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCAACCACCCTCTCTGCACAGGTCACTATGCTACAGgtatgggctatacaggaggattgtacatgacctgagcaagacctcaatctt-ttatatccaatgaacacctgaattaat-gtcaat--gtggatttattgtgca---
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CAAGGAAAGGAAGATCAAGTACACTAGCGAGCTGGAGAGGAAGGTGCAGACACTGCAGACCGAGGCCACCACGCTGTCTGCACAGCTCACGCTTCTCCAGgtatggaacttt-----gtttattccgagcgccagataagcctcctatattgtcttatctaatcagc--ttagtttgttagtcaattgttttgtttgacatgtatta
upper sequence: Vv18s0076g00330.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os11g06170.2 (Oryza sativa), 5'ss of exon 2
AAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCAACCACCCTCTCTGCACAGGTCACTATGCTACAGgtatgggctatacaggaggattgtacatgacctgagcaagacctcaatcttttatatccaatgaacacctgaattaat--gtcaatgtg--gatttattgtgca
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GAAGGAGAGGAAGATCAAGTACACCGGTGAGCTGGAGAGGAAGGTGCAGACGCTGCAGACAGAGGCAACCACGCTTTCAACACAGCTCACGCTGCTCCAGgtatgcattatagctcaagcttgtg-gtg-cctctgcaa--ctactaccataaaagtgaggctagtgctctatctgatcagttgattttttgtttggctatgct
upper sequence: Vv18s0076g00330.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM5G821024_T02 (Zea mays), 5'ss of exon 2
AAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCAACCACCCTCTCTGCACAGGTCACTATGCTACAGgtatgggctata--caggaggattgtacatgacctgagcaagacctcaatcttttatatccaatgaacacctga--attaatgtcaatgtggatttattgtgca
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CAAGGAGAGGAAGATCAAGTACACCAGTGAGCTGGAGAGGAAGGTGCAGACGCTGCAGACAGAGGCCACCACACTTTCGGCACAGCTCACGCTTCTTCAGgtaacgaatattgcttggttgctttgaccaggcactatcataactt-attgttccccctccaaagtcccgcttatcctcggagacaaaaaaaaatgatcat---
upper sequence: Vv18s0076g00330.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G079365_T01 (Zea mays), 5'ss of exon 2
AAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCAACCACCCTCTCTGCACAGGTCACTATGCTACAGgtatgggctataca---ggaggattgtacatgacctgagcaagacctcaatcttttatatccaatgaacacctgaattaatgtcaatgtggatttattgtgca
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CAAGGAGAGGAAGATCAAGTACACCAGTGAGCTGGAGAGGAAGGTGCAGACGCTGCAGACAGAGGCCACCACGCTTTCGGCACAGCTCACGCTTCTTCAGgtaacgaatatttgtttggttgctttgaccaggcactatcataacttattgtgccctcctccaaagtcccgcttatccttggacagaaaaaaaaaatctt---
upper sequence: Vv18s0076g00330.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA02G09140.1 (Glycine max), 5'ss of exon 2
AAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCAACCACCCTCTCTGCACAGGTCACTATGCTACAGgtatgggctatacaggaggattgtacatgacctgagcaagacctcaatcttttatatccaatgaacacctgaattaa------tgtcaatgtggatttattgtgca-
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CAAGGAGAGGAAGATTCGTTACACAAGTGAGTTGGAGAGGAAGGTGCAGACTCTTCAGACTGAAGCAACTAACCTTTCTGCACAGCTTACCATGCTTCAGgtacatcctttccttt----tcgttttttgtgtttataagtcct-agcttatgaagatgagtaaaca--tgaatttggtaacttgttcttgtcagtgtttgatggag
upper sequence: Vv18s0076g00330.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA16G28370.1 (Glycine max), 5'ss of exon 2
AAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCAACCACCCTCTCTGCACAGGTCACTATGCTACAGgtatgggctatacaggaggattgtacatgacctgagcaagacctcaatcttttatatccaatgaacacctgaattaatgtcaatgtggatttattgtgca-
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TAAGGAGAGGAAGATTCGTTACACAAGTGAGTTGGAGAAGAAGGTGCAGACTCTTCAGACTGAAGCAACTAACCTTTCTGCACAGCTTACCATGCTTCAGgtgcgtcctttccttttcgttt-tgcatttataagtcctaattttgaagatgagtaaacatgaatttggtgacttgttcttgtcagtgtttgatggagccc
upper sequence: Vv18s0076g00330.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT1G43700.1 (Arabidopsis thaliana), 5'ss of exon 2
AAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCAACCACCCTCTCTGCACAGGTCACTATGCTACAGgtatgggctatacaggaggattgtacatgacctgagcaagacct-caatcttttatatccaatgaacacctgaattaatgtcaatgtggatttattgtgca
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GAAAGAGAGGAAGATTAGGTATACTGGTGAGTTAGAGAGGAAGGTTCAGACACTTCAGAATGAAGCTACTACATTGTCTGCTCAAGTCACTATGTTACAGgta-atgttttgtattactttgtcattgtgtttatgcaattggtgtgactagtgaaggttggtgagtagattactaaatatctttaaagctttgtgttttaMapped 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|110727015|gb|EE103324.1|EE103324EST: CACTTCAAACAGAAGCAACCACCCTCTCTGCACAGGTCACTATGCTACAG AGAGATACCACTGGACTGACTGCCGAGAATAAGGAACTCAAACTACGGTTG
genomic: CACTTCAGACAGAAGCAACCACCCTCTCTGCACAGGTCACTATGCTACAGgtatgggcta ... tgtgatgcagAGAGATACCACTGGACTGACTGCCGAGAATAAGGAACTCAAACTACGGTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAGGAGAGGAAAATACGCTATACTAATGAACTGGAGAGGAAGGTGCAGACACTTCAGACAGAAGCAACCACCCTCTCTGCACAGGTCACTATGCTACAGgtatgggctatacaggaggattgtacatgacctgagcaagacctcaatcttttatatccaatgaacacctgaattaatgtcaatgtggatttattgtgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagcaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgaaca