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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATCATCAGTGGCCAAAACTTTCTTGATGTCAGATTGTGTAGTGGTGGAAATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagctggaaaacaatgttttattcctgtacagggggttaggagctggagacaaattcaataattatcaaacacttggaactcatttgtcttcatttgtgacag

Basic information

species Vitis vinifera
transcript Vv06s0004g00240.t01
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: GLYMA15G40110.1 (Glycine max), 5'ss of exon 13
GCATCATCAGTGGCCAAAACTTTCTTGATGTCAGATTGTGTAGTGGTGGAAATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagctggaaaacaatgttttattcctgtacagggggttaggagctggagacaaatt-caataattatcaaacacttggaactcatttgtcttcatttgtgacag
||| | || || |||||||| ||||| |||||||||||||| || || || || || || ||||| || ||   ||| ||||| |||||||||||||||||| ||||| |  |||   |  |  ||||  || |   ||  |     ||  | |  ||  | ||||| || |||| |||||  |  | |  | ||   |||   || | 
GCAGCCTCTGTAGCCAAAACCTTCTTAATGTCAGATTGTGTGGTTGTCGAGATAAAGGAACCTGAGCCTGTACCTGCTGGAAACCCCATGGACAATTCAGgtatgtagttttaaatggagatactattt-tgcatttggtat-----gccagtgtgaatctacaatacttttcaa-cactttca-ttgagatttcaatattatggaaa-

upper sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: AT5G56500.2 (Arabidopsis thaliana), 5'ss of exon 14
GCATCATCAGTGGCCAAAACTTTCTTGATGTCAGATTGTGTAGTGGTGGAAATCAAAGAGCCTGAACCAGTGG---TTGCAGGAAATCCCATGGACAATTCAGgtttgtagctggaaaacaatgttttattcctgtacagggggttaggagctggagacaaattcaataattatcaaacacttggaactcatttgtcttcatttgtgacag
   ||||| ||||| || || ||||||||||| |||||||| || ||||| ||||| ||||||||| |||  |    ||| || || || ||||||||||||||| | |  ||       | | | || ||| || |        |  ||       ||||| ||   || | | |  |      || |  | ||||    ||        
---TCATCTGTGGCAAAGACATTCTTGATGTCTGATTGTGTTGTTGTGGAGATCAAGGAGCCTGAATCAGCAGCTCCTGCTGGTAACCCTATGGACAATTCAGgtatct--ct------tagt-tcttcttcttgaatc-----ctctgaatcattaacaaaatctgcaact-ttattcttacaaaatttctctgtcggttttcag-----
















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|34362513|gb|CF404098.1|CF404098
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGG-T-TGACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|33401980|gb|CF207607.1|CF207607
EST:     AATCAAAGAGCCCGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|110383476|gb|EC947851.1|EC947851
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|34543776|gb|CF512008.1|CF512008
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|110363904|gb|EC927535.1|EC927535
EST:     AATTAAAGAGCGTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATAGTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|351030401|gb|FQ432339.1|FQ432339
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|110419196|gb|EC985406.1|EC985406
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|32269405|gb|CD718564.1|CD718564
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|71874824|gb|DT023879.1|DT023879
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|110688028|gb|EE066108.1|EE066108
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAAGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|34547567|gb|CF515799.1|CF515799
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGGTGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|37190147|gb|CF609496.1|CF609496
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|18458219|gb|BM436497.1|BM436497
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|30320331|gb|CD003593.1|CD003593
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|110415987|gb|EC981934.1|EC981934
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGG-T-TGACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|110414312|gb|EC980139.1|EC980139
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|34547481|gb|CF515713.1|CF515713
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGGTGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|110362655|gb|EC926202.1|EC926202
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|110362851|gb|EC926408.1|EC926408
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|110420169|gb|EC986432.1|EC986432
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|33401795|gb|CF207422.1|CF207422
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGGATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG
EST: gi|351022922|gb|FQ428831.1|FQ428831
EST:     AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAG                         GTTATGGATACTAGGTTG--ACAACCCAGCAGAATGATGATAGGCACTTGG
genomic: AATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagct ... tttgtgacagGTTATGGATACTAGGTTGTGACAACCCAGCAGAATGATGATAGGCACTTGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCATCATCAGTGGCCAAAACTTTCTTGATGTCAGATTGTGTAGTGGTGGAAATCAAAGAGCCTGAACCAGTGGTTGCAGGAAATCCCATGGACAATTCAGgtttgtagctggaaaacaatgttttattcctgtacagggggttaggagctggagacaaattcaataattatcaaacacttggaactcatttgtcttcatttgtgacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA