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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACACCCTTAGCGAGGAATCTTACAAAGACAGCACTTTAATTATGCAGCTCTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAGgtaaacacacagagtcactttaaattttgagcagtttgatgtcattcctttgtagtaatgtggatgttcctgtcaggggaagaggggttgatttggaagt...

Basic information

species Vitis vinifera
transcript Vv19s0014g01420.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0014g01420.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA05G29080.7 (Glycine max), 5'ss of exon 5
GACACCCTTAGCGAGGAATCTTACAAAGACAGCACTTTAATTATGCAGCTCTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAGgtaaacacaca---gagtcactttaaatt-ttgagcagtttgatgtcattcctttgtagtaatgtggatgttcctgtcaggggaagaggggttgatttggaagt
|| || || |||||||| |||||||||||||||||  |||||||||||||  | ||||| || || ||  |||||||||||||||||||||| ||||||||||  ||   |    | ||| | ||   | |  | | ||||| ||   ||  | || | |       |  | | ||  |         ||||| |||    |||
GATACTCTGAGCGAGGAGTCTTACAAAGACAGCACCCTAATTATGCAGCTTCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAGgtattcattaatggaaatcaatgtactctgtcaatctgtttgctggactttgtctgcaatgtaaataaaatacatg--aaaacttttagggttaatt--acagt

upper sequence: Vv19s0014g01420.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA08G12220.5 (Glycine max), 5'ss of exon 5
GACACCCTTAGCGAGGAATCTTACAAAGACAGCACTTTAATTATGCAGCTCTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAGgtaaacacacagagtcactttaaattttgag-cagtttgatgtcattcctttgtagtaatgtggat-gttcctgtcaggggaagaggggttgatttggaagt
|| || || |||||||| |||||||||||||||||  |||||||||||||  | ||||| || || ||  |||||||||||||||||||||| || |||||||  ||   |  |  | |  |  ||||| | || | || |  |    |||      |||||  ||        | |         ||||| |||   |   
GATACTCTGAGCGAGGAGTCTTACAAAGACAGCACCCTAATTATGCAGCTTCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcat-taatggaaatcaatgttttgtgtcactctgttagctggacttgtccacaatgtaaattaaatacatgaaaacttttagggttaattacaaga-
















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|110364728|gb|EC928194.1|EC928194
EST:     CTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAG                         AAGACCAGAAGATGGAAAGCTCTGCCAAAGCTGGTGGAGACGATGAG
genomic: CTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAGgtaaacacac ... atccctgcagAAGACCAGAAGATGGAAAGCTCTGCCAAAGCTGGTGGAGACGATGAG
EST: gi|30126672|gb|CB912011.1|CB912011
EST:     TTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAG                         AAGACCAGAAGATGGAAAGCTCTGCCAAAGCTGGTGGAGACGATGAG
genomic: CTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAGgtaaacacac ... atccctgcagAAGACCAGAAGATGGAAAGCTCTGCCAAAGCTGGTGGAGACGATGAG
EST: gi|110690696|gb|EE068079.1|EE068079
EST:     TTAAGGGATA-CCTTACTTTGTGGACTTCTGACATCCCTGGAG-ATGGAG                         AAGAC-AGAAGATGG
genomic: TTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTG-AGGATGGAGgtaaacacac ... atccctgcagAAGACCAGAAGATGG
EST: gi|110684625|gb|EE062116.1|EE062116
EST:     TTAAGGGATA-CCNTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAG                         AAGACCANAAGATGGNAAGCTCTGCCAAAGCTGGTGGAGACGATGAG
genomic: TTAAGGGATAACC-TTACTTTGTGGACTTCTGACATCCCTGAGGATGGAGgtaaacacac ... atccctgcagAAGACCAGAAGATGGAAAGCTCTGCCAAAGCTGGTGGAGACGATGAG
EST: gi|110688139|gb|EE066347.1|EE066347
EST:     TAAGG-ATAACCTTACTTTGTGGACTTCTGACATCCCTGGAG-ATGGGAG                         AAGAC-ANAAGATGGAAAGCTCTGCCA
genomic: -AAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTG-AGGATGG-AGgtaaacacac ... atccctgcagAAGACCAGAAGATGGAAAGCTCTGCCA
EST: gi|110703927|gb|EE081301.1|EE081301
EST:     CTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAG                         AAGAACAAAAGATGGAAAGCTCTGCCA
genomic: CTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAGgtaaacacac ... atccctgcagAAGACCAGAAGATGGAAAGCTCTGCCA
EST: gi|161712034|gb|FC060050.1|FC060050
EST:     CTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAG                         AAGACCAGAAGATGGAAAGCTCTGCCAAAGCTGGTGGAGACGATGAGG
genomic: CTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAGgtaaacacac ... atccctgcagAAGACCAGAAGATGGAAAGCTCTGCCAAAGCTGGTGGAGACGATGAGG
EST: gi|33404615|gb|CF210242.1|CF210242
EST:     TTTAAGGGATAACCTTACTTTGTGGGCTTCTGACATCCCTGAGGATGGAG                         AAGACCAGAAGATGGAAAGCTCTGCCAAAGCTGGTGGAGACGATGAG
genomic: CTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAGgtaaacacac ... atccctgcagAAGACCAGAAGATGGAAAGCTCTGCCAAAGCTGGTGGAGACGATGAG
EST: gi|110698951|gb|EE077033.1|EE077033
EST:     TTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAG                         AAGACCAGAAGATGGAAAGCTCTGCCAAAGCTGGTGGAGACGATGAG
genomic: CTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAGgtaaacacac ... atccctgcagAAGACCAGAAGATGGAAAGCTCTGCCAAAGCTGGTGGAGACGATGAG
EST: gi|110359344|gb|EC920679.1|EC920679
EST:     TTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAG                         AAGACCAGAAGATGGAAAGCTCT
genomic: CTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAGgtaaacacac ... atccctgcagAAGACCAGAAGATGGAAAGCTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACACCCTTAGCGAGGAATCTTACAAAGACAGCACTTTAATTATGCAGCTCTTAAGGGATAACCTTACTTTGTGGACTTCTGACATCCCTGAGGATGGAGgtaaacacacagagtcactttaaattttgagcagtttgatgtcattcctttgtagtaatgtggatgttcctgtcaggggaagaggggttgatttggaagt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggaaga