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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATTTTGCATACCGGAGCTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaattttatatacggggtattttcaaaatctatattttgtatcatacccctgtaagtttctaagtattttccctgttttctacgacag

Basic information

species Vitis vinifera
transcript Vv05s0020g03200.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g03200.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA20G28340.1 (Glycine max), 5'ss of exon 2
CATTTTGCATACCGGAGCTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaattttatatacggggtattttca-----aaatctatattttgtatcatacc--cctgtaagtttctaagtattttccctgttttctacgacag
 || |||||||| |||||||  |||||||| ||||||||| || ||||||| ||||||||||| |||||    |   | ||| |     || || |      |||||   |   |  || | ||   ||| | | | | |       ||   |||   ||    |||
TATATTGCATACAGGAGCTAGCCAGTACCAAGACATTGCATTGTTGGACACAAAGCCCTTTGGAAAGgttcacatgctcatacaacatatagttaccttaacaaatcatgaacctaaattaaactagcctcttattatgtgctcgactttgttgtgcccttttgcag

upper sequence: Vv05s0020g03200.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA10G39440.1 (Glycine max), 5'ss of exon 2
CATTTTGCATACCGGAGCTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaattttatata-cggggtattttcaaaatctatattttgtatcatacccctgtaagtttctaagtattttccctgtttt-ctacgacag-------
 || |||||||| |||||||  |||||||||||||||||| || |||| || ||||||||||| |||||    |  || ||| | |     | || |   | ||| ||  || | || |        ||  ||| | ||  | | |   |||  |  | |         
TATATTGCATACAGGAGCTAGCCAGTACCAGGACATTGCATTGTTGGATACAAAGCCCTTTGGAAAGgttcacatgttcatacaacataaaagttaccttaacta-atcatgaaccaaagttaaactagcctcttattaggtgctcaactttgttgtgccctttttcag
















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|352791045|gb|FQ480038.1|FQ480038
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|352786447|gb|FQ479056.1|FQ479056
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351055343|gb|FQ441941.1|FQ441941
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|349822939|gb|FQ399918.1|FQ399918
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351036339|gb|FQ458714.1|FQ458714
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351039310|gb|FQ461177.1|FQ461177
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351049434|gb|FQ450035.1|FQ450035
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351051773|gb|FQ455187.1|FQ455187
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351035817|gb|FQ463662.1|FQ463662
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351038474|gb|FQ464340.1|FQ464340
EST:     CTACGCAGTACCAGGACATTGCACTGATGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|349824845|gb|FQ414703.1|FQ414703
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351038444|gb|FQ464310.1|FQ464310
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGACGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351034444|gb|FQ463257.1|FQ463257
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351049225|gb|FQ449947.1|FQ449947
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351048095|gb|FQ441267.1|FQ441267
EST:     CTACGCAGTACCAGGACATTGCACTGATGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351053780|gb|FQ441546.1|FQ441546
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351037593|gb|FQ462576.1|FQ462576
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351013942|gb|FQ434094.1|FQ434094
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351048233|gb|FQ442203.1|FQ442203
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|352793951|gb|FQ479193.1|FQ479193
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351030375|gb|FQ432313.1|FQ432313
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351032566|gb|FQ458931.1|FQ458931
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351048148|gb|FQ442118.1|FQ442118
EST:     CTACACAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|161715874|gb|FC067453.1|FC067453
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351052302|gb|FQ455474.1|FQ455474
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351031893|gb|FQ460150.1|FQ460150
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351022726|gb|FQ428635.1|FQ428635
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|349815985|gb|FQ403626.1|FQ403626
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351042120|gb|FQ456330.1|FQ456330
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351031200|gb|FQ445027.1|FQ445027
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351039295|gb|FQ461162.1|FQ461162
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
EST: gi|351047673|gb|FQ455070.1|FQ455070
EST:     CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAG                         GCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC
genomic: CTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaatt ... tctacgacagGCTTTAGTCATTGATGGAAAGCTTCAAAGTGCTGAGATTGATGAATTCATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATTTTGCATACCGGAGCTACGCAGTACCAGGACATTGCACTGCTGGACACGAAGCCCTTTGGGAAGgtctgaaattttatatacggggtattttcaaaatctatattttgtatcatacccctgtaagtttctaagtattttccctgttttctacgacag

- - - - - - - - - - - - - - - - - - - - - GCTGGA