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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGAAGAGAAACTTGAGTCTGGACAAGGGAAAACAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcgtggaacatactatgaccttctggttacatggaacttctgtttcctcagcttcttattaatccttttatccatttcttgaggcttacaaag...

Basic information

species Vitis vinifera
transcript Vv04s0023g00380.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g00380.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA18G47670.1 (Glycine max), 5'ss of exon 7
GTTGAAGAGAAACTTGAGTCTGGACAAGGGAAAACAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcgtggaacatactatgaccttctggttacatggaacttctgtttcctcagcttcttatta-atccttttatccatttcttgaggcttacaaag
|||||||| ||||| ||   |||||||||||||||     | || |||||||||||||||||||| ||||||||||| ||||||| | ||        ||| ||| |  | |  |  |||  || ||   |    |   || || | | | | ||  | || ||  |||  ||  |         
GTTGAAGAAAAACTGGATGGTGGACAAGGGAAAACTTCAGTTCGGCGCTTCTTTTCAAGATTCTGTACACCAATATTTTTGGAGgcaagt--------aca-acttttgcatcat--ttatttgaaataaccacatttgca-ctacatgtaatattatcttttcttttttatgcag---------

upper sequence: Vv04s0023g00380.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA09G38640.1 (Glycine max), 5'ss of exon 7
GTTGAAGAGAAACTTGAGTCTGGACAAGGGAAAACAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcgtggaacatactatgaccttctggttacatggaacttctgtttcctcagcttcttatta-atccttttatccatttcttgaggcttacaaag
|||||||| ||||| ||   |||||||||||||||     |  | ||||||||||||||||| || ||||||||||| ||||||| | ||       |   |   || |  |  | |    |   ||   |    |     ||| | | | | ||| | || ||  |||  ||  |         
GTTGAAGAAAAACTGGATGGTGGACAAGGGAAAACTTCAGTTAGGCGCTTCTTTTCAAGATTTTGTACACCAATATTTTTGGAGgcaagtac----aacttttgcatcatttatttgactgagaaaataaccacatttgt-gctacatgtaatatcatcttttcttttttatgcag---------
















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|110415417|gb|EC981325.1|EC981325
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|110375514|gb|EC940507.1|EC940507
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|33405511|gb|CF211138.1|CF211138
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|30303671|gb|CB980465.1|CB980465
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|110386306|gb|EC950891.1|EC950891
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|34320010|gb|CF372764.1|CF372764
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|110403098|gb|EC964255.1|EC964255
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|110398724|gb|EC965198.1|EC965198
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|110393823|gb|EC959339.1|EC959339
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|110689638|gb|EE066037.1|EE066037
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|30303609|gb|CB980403.1|CB980403
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|30133680|gb|CB919019.1|CB919019
EST:     AGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: AGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|30133597|gb|CB918936.1|CB918936
EST:     CAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|110369298|gb|EC933452.1|EC933452
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|161719466|gb|FC066414.1|FC066414
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|110685575|gb|EE062425.1|EE062425
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCGGC-CACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGA
EST: gi|110418308|gb|EC984450.1|EC984450
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|71866927|gb|DT015982.1|DT015982
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
EST: gi|110418385|gb|EC984534.1|EC984534
EST:     CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAG                         TCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA
genomic: CAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcg ... tcatgtgcagTCTTTTATTTTGACTTTTCTAGCCGAGTGGGGGGATCGCAGCCAGATCGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGAAGAGAAACTTGAGTCTGGACAAGGGAAAACAAGTTTCCGCCGCTTCTTTTCAAGATTCTGCACACCAATATTCTTGGAGgtatgtctcgtggaacatactatgaccttctggttacatggaacttctgtttcctcagcttcttattaatccttttatccatttcttgaggcttacaaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG