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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCAGGGTATCTACAATAGGCTAACCTGGTGGGAGCAAATAGACAGTGGGAAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCTgtaagtattttttcagctatgaatcttttgattttgatgttgaggctaaataaacaagtgaatctctttgatggaattgctgatgtaatttatttcaagt...

Basic information

species Vitis vinifera
transcript Vv02s0025g02260.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0025g02260.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os04g47970.1 (Oryza sativa), 5'ss of exon 2
ACCAGGGTATCTACAATAGGCTAACCTGGTGGGAGCAAATAGACAGTGGGAAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCTgtaagtattttttcagctatgaatc-ttttgattttgatgttgaggctaaataaacaagtga--atctctttgatggaattgctgatgtaatttatttcaagt
||||||| || || |||||  | || |||||||||||||| |||| |||||||||||| |||||||| ||||| ||||| || || || || ||||| ||||||| ||   |   | |  || |  ||||  |||| |         | || | |    |||  ||   ||  |   |     | | ||| |   |   ||  
ACCAGGGGATGTATAATAGATTGACTTGGTGGGAGCAAATGGACAATGGGAAGCAGCTTACTCGCAACAGAAAATTTCTGACCGTGGTTCCTTTGGTCCTgtaagaataaatct-gttgcgattgattttccttttcactacagcattgaaaatatggatgatgattgattctacatagccagtaa-gtagtaactagtaaa-

upper sequence: Vv02s0025g02260.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G044720_T02 (Zea mays), 5'ss of exon 1
ACCAGGGTATCTACAATAGGCTAACCTGGTGGGAGCAAATAGACAGTGGGAAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCTgtaagtattttttcagctatgaatcttttgattttgatgttgaggctaaa--taaacaagtgaatctctttgatggaattgctgatgtaatttatttcaagt
|||| || |||||||  ||  | || |||||||||||||| |||| |||  ||||||| ||||| || ||||||||| | ||||| || ||  |||||||||||||    | ||| |         ||      | |  |||    | |   |   |||  |||  |  |       | | | |     ||||  ||     
ACCAAGGCATCTACAGCAGATTGACATGGTGGGAGCAAATTGACAATGGTCAGCAGCTTACTCGGAACAGAAAGTTTTTGACTGTGGTACCTGTGGTGCTgtaagttccatctcatcctcatgcagttcacacatcaaattgctctttaggttctgcaaaggaaatttatactaatcagttcaggcagtatttgcttgtg--
















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|77579802|gb|DV218780.1|DV218780
EST:     AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCT                         GTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
genomic: AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCTgtaagtattt ... catttggcagGTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
EST: gi|110694478|gb|EE071618.1|EE071618
EST:     AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCT                         GTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
genomic: AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCTgtaagtattt ... catttggcagGTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
EST: gi|71868218|gb|DT017273.1|DT017273
EST:     AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCT                         GTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
genomic: AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCTgtaagtattt ... catttggcagGTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
EST: gi|71866545|gb|DT015600.1|DT015600
EST:     AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCT                         GTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
genomic: AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCTgtaagtattt ... catttggcagGTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
EST: gi|110381919|gb|EC938009.1|EC938009
EST:     AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCT                         GTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
genomic: AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCTgtaagtattt ... catttggcagGTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
EST: gi|71873092|gb|DT022147.1|DT022147
EST:     AAGCAGCTCACTTGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCT                         GTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
genomic: AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCTgtaagtattt ... catttggcagGTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
EST: gi|110410892|gb|EC976586.1|EC976586
EST:     AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCT                         GTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
genomic: AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCTgtaagtattt ... catttggcagGTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
EST: gi|71876002|gb|DT025057.1|DT025057
EST:     AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCT                         GTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT
genomic: AAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCTgtaagtattt ... catttggcagGTACTTAATAGCCTCGCATACAACCGACTACCAACACCCCATGCTGTTCTT

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCAGGGTATCTACAATAGGCTAACCTGGTGGGAGCAAATAGACAGTGGGAAGCAGCTCACTCGCAATAGAAAGTTTCTCACTGTTGTGCCCTTGGTGCTgtaagtattttttcagctatgaatcttttgattttgatgttgaggctaaataaacaagtgaatctctttgatggaattgctgatgtaatttatttcaagt

- - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagtgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatggaa