Sequence
atgc intronic sequence ATGC exonic sequenceGCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaagaaaaacaaaacccacttacagcatgcatttggaagtaatccttttttactacagtactcagcccctttatgttgatgttctgacttacactattactccttgtcatgttcatggttattggggatgccattccaatcaattgatgcaattgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os03g12950.1 (Oryza sativa), 5'ss of exon 3
GCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaagaaaaacaaaacccacttacagcatgcatttggaagtaatccttttttactacagtactcagcccctttatgttgatgttctgacttacactattactccttgtcatgttcatggttattggggatgccattccaatcaattgatgcaattgcag
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GCACAGGTGGACTGGAAGATATGAAGCCCACCTCTGGGATAACAGTTGCAAAAAGGATGGACAGACAAGGAAGGGAAGGCAAGgttgaaccttgaacatctagtactactacaacat-----caaaatttgttcatcttaaaaat---------cttgttgacaatgtcattctgattt------ttatatttcatcatattgggcgttaccatgaccgaaattt-gatcgcttgcag---------
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os03g56050.1 (Oryza sativa), 5'ss of exon 3
GCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaagaaaaacaaaacccacttacagcatgcatttggaagtaatccttttttactacagtactcagcccctttatgttgatgttctgacttacactattactccttgtcatgttcatggttattggggatgccattccaatcaattgatgcaattgcag
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GCATAGGTGGACTGGGAGATATGAGGCACACCTCTGGGACAACAGCTGCAAGAAGGAAGGCCAGACCAGAAAAGGACGCCAAGgttag---agaaacttgacat------------tgtgattaatcacactttcttatgttttaaatgctgatgaaatgtatatgtatgttct----tgcatgatcatcctgctgaatctt---------------------------------------------
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G021573_T01 (Zea mays), 5'ss of exon 3
---GCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaagaaaaacaaaacccacttacagcatgcatttggaagtaatccttttttactacagtactcagcccctttatgttgatgttctgacttacactattactccttgtcatgttcatggttattggggatgccattccaatcaattgatgcaattgcag
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CAGGCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAGgttgat---agctaacaaaaccc-caaaaaaaattgatgcagca--agtctttacccatcatcttatacctccttttggttttgttttgtttatatatttttgaaa----------------------------------------------------------
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G021573_T02 (Zea mays), 5'ss of exon 2
GCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaagaaaaacaaaacccacttacagcatgcatttggaagtaatccttttttactacagtactcagcccctttatgttgatgttctgact-tacactattactccttgtcatgttcatggttattggggatgccattccaatcaattg-atgcaat-tgcag
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GCACAGGTGGACTGGGAGATACGAAGCCCACCTCTGGGACAACAGCTGCAGGAAGGATGGGCAGACTAGAAAAGGCAGACAAGgttgat---agctaacaaaaccc-caaaaaaaattgatgcagca--agtctttacccatcatcttat---acctccttttggttttgttttgtttatatatttttgaaa-tggtgattctggggtttgccatgactg--aatgtgattggctgcatgcgccacacag
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA06G05170.1 (Glycine max), 5'ss of exon 5
GCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaagaaaaacaaaacc------cacttacagcatgcatttggaagtaatccttttttactacagtactcagcccctttatgttg-atgttctgacttacactattactccttgtcatgttcatggttattggggatgccattccaatcaattgatgcaattgcag
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GCATAGATGGACTGGTAGGTATGAAGCGCATTTGTGGGATAATAGTTGCAAGAAGGAAGGGCAGACTAGGAAAGGAAGACAAGgttagtgagaatgaataatagttgttgacatttttattaattttttggaagtattattctcct-ttaaagctttttggtcccaaatctgacatgtgccgat----------------------------------------------------------------------
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA04G05080.1 (Glycine max), 5'ss of exon 4
GCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaagaaaaacaaaacccacttacagc---atgcatttggaagtaatccttttttactacagtactcagcccctttatgttgatgttctgacttacactattactccttgtcatgttcatggttattggggatgccattccaatcaattgatgcaattgcag
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GCATAGATGGACTGGTAGGTATGAAGCGCATTTGTGGGATAATAGTTGCAAGAAGGAAGGGCAAACTAGGAAAGGACGACAAGgttagtgagaatgaataacagtggttgacatttttattaattttttggtagta-ttctccattaaagcttttggtccctaatctgacatgtgcccactaac------------------------------------------------------------------
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA14G10130.1 (Glycine max), 5'ss of exon 6
GCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaagaaaaacaaaacccacttacagcatgcatttggaagtaatccttttttactacagtactcagcccctttatgttgatgttctgacttacactattactccttgtcatgttcatggttattggggatgccattccaatcaattgatgcaattgcag
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GCATAGATGGACTGGTAGATATGAAGCGCATTTGTGGGATAACAGTTGCAAGAAGGAAGGGCAAACCAGGAAAGGACGACAAGgttagttagcaaaagc----------tttagtattgactcattggtaat-----ttgaaaactttattta----ttttgaactagtgttttt-cttactttgtt-ttttgagctgtgccca-------------------------------------------
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA0041S00200.1 (Glycine max), 5'ss of exon 6
GCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaagaaaaacaaaacccactt-acagcatgcatttggaagtaatccttttttactacagtactcagcccctttatgttgatgttctgacttacactattactccttgtcatgttcatggttattggggatgccattccaatcaattgatgcaattgcag
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GCATAGATGGACTGGTAGATATGAAGCACATTTGTGGGATAACAGTTGCAAGAAGGAAGGGCAAACAAGGAAAGGACGACAAGgtttgttagcacagactttatttattttaaagtatttattt-----tactttgtttttgaagctgtgcccactaactttgt-ttcacctattgtgtgggttcacaa-----------------------------------------------------------
upper sequence: Vv18s0001g08610.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 3
GCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaagaaaaacaaaacccacttacagcatgcatttggaagtaatccttttttactacagtactcagcccctttatgttgatgttctgacttacactattactccttgtcatgttcatggttattggggatgccattccaatcaattgatgcaattgcag
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ACATAGATGGACTGGTAGATATGAAGCTCATCTATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgt----ctagtgcttttttatttaattat--cattaagctaaacatagaaacttttta----agtagtttatgatttaacgt-attactgacatttgagttttattttcttgttttctctatgtgtgataatgatttgatgatcttcttctcag----------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|34542668|gb|CF510900.1|CF510900EST: TTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAG TTTATCTNN
genomic: TTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaag ... gcaattgcagTTTATCTGG
EST:
gi|110700948|gb|EE078047.1|EE078047EST: TTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAG TTTATCTNN
genomic: TTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaag ... gcaattgcagTTTATCTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaagaaaaacaaaacccacttacagcatgcatttggaagtaatccttttttactacagtactcagcccctttatgttgatgttctgacttacactattactccttgtcatgttcatggttattggggatgccattccaatcaattgatgcaattgcag
- - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA