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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATAGTTTAAAAGAGGTTTTGGATGCACCAAATGTGATGAACATGATAAAGGATACAAAAGCAGCACAAGAGgtaggatgcaaatccttcttggttaacatcttcatctgtctctttctgattttgtttctcttcctaactcttgttgtctgttcaaacctgtttgttaagcgagctctgtccatctttgccttgaaataacaaatatctttctccccctttttgtag

Basic information

species Vitis vinifera
transcript Vv04s0023g00140.t01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g00140.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GRMZM2G044011_T02 (Zea mays), 5'ss of exon 11
GCATAGTTTAAAAGAGGTTTTGGATGCACCAAATGTGATGAACATGATAAAGGATACAAAAGCAGCACAAGAGgtaggatgcaaatccttcttggttaacatcttcatctgtctctttctgattttgtttctcttcctaactcttgttgtctgttcaaacctgtttgt--taagcgagctctgtccatctttgccttgaaataacaaatatctttctccccctttttgtag
|||||||||||| || ||||||||  |||||  |||||||    ||||||| ||||||||||||||||| |||||| ||  |  |   |   |     || ||   |  | |     | |   | ||    |  |   || |        |     ||  || ||  |   |||  ||                                                     
GCATAGTTTAAAGGAAGTTTTGGACACACCAGGTGTGATGGCACTGATAAAAGATACAAAAGCAGCACAGGAGgtaaga--ctgactataaatcacacacgtcactagatatactaatttatgtatgagctttctttaaaataacaacaaca----aagtcttttaatcccaagtaagt----------------------------------------------------

upper sequence: Vv04s0023g00140.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA10G31310.1 (Glycine max), 5'ss of exon 12
GCATAGTTTAAAAGAGGTTTTGGATGCACCAAATGTGATGAACATGATAAAGGATACAAAAGCAGCACAAGAGgtaggatgcaaatccttcttggttaacatcttcatctgtctctttctgattttgtttctcttcctaactcttgttgtctgttcaaacctgtttgttaagcgagctctgtccatctttgc-cttgaaataacaaatatctttctccccctttttgtag
|||||||||||| |||||||||||||| |||||||| ||||   ||||||| ||||| ||||||||||||||||||  ||  |||||      |   | | | || |  | ||  |||  |    ||   | | | || | | |  |      ||   |  |  |  |||       ||| |  |   |||  | || |||||    |||  ||      | ||  |   
GCATAGTTTAAAGGAGGTTTTGGATGCTCCAAATGTCATGAGTTTGATAAAAGATACTAAAGCAGCACAAGAGgtaccatcaaaatcaaagcagtgcaccttttttacttttccattt--ggccctgcaccccctgctgaatatgctgaataattttcatattctgcttacttatcttctattgactattgagcctggaataagctttattctttgttttccttcag---

upper sequence: Vv04s0023g00140.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA20G36200.1 (Glycine max), 5'ss of exon 12
GCATAGTTTAAAAGAGGTTTTGGATGCACCAAATGTGATGAACATGATAAAGGATACAAAAGCAGCACAAGAGgtaggatgcaaatcc--------ttcttggttaacatcttcatctgtctcttt--ctgattttgtttctcttcctaactcttgttgtctgttcaaacctgtttgttaagcgagctctgtccatct---ttgccttgaa---ataacaaatatctttctccccctttttgtag
 ||||| ||||| |||||||||||||| |||||||| ||||   | ||||| ||||| ||||||||||||||||||  ||  ||| |           | |  || || | | ||| || | ||    |  || |||  | | ||||    |||  ||   | |       ||  | |  | |  | | |||  |  |   ||    |||      || ||   |  ||||     ||  |  ||
ACATAGCTTAAAGGAGGTTTTGGATGCTCCAAATGTCATGAGTTTAATAAAAGATACTAAAGCAGCACAAGAGgtaccatcaaaaccaaagcagtacaccttttttacttttccatttggccctgcagcccatgttgaatattttccatgttctgtttacttatcttctattgagtctggaacatgttttgtttacttatcttctactgagcctggaataagctttattctttgttttccttcag

upper sequence: Vv04s0023g00140.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: AT4G27650.1 (Arabidopsis thaliana), 5'ss of exon 13
GCATAGTTTAAAAGAGGTTTTGGATGCACCAAATGTGATGAACATGATAAAGGATACAAAAGCAGCACAAGAGgtaggatgcaaatccttcttggttaacatcttcatctgtctctttctgattttgtttctcttcctaactcttgttg--tctgttcaaacctgtttgttaagcgagctctg---tccatc-tttgccttgaaat---aacaaatatctttctccccctttttgtag--------------------
 |||||  |    |||||| |  |||| || || |||||||| |||||||| ||||||||||||||| |||||||    |  ||      ||   ||      ||  ||  ||       | ||   ||     ||  || ||        ||   | |  |||   ||||  | |   | ||   || ||| | ||  |||   |    | |  || |||| ||  |    |    |                    
ACATAGCCTGGGTGAGGTTCTCCATGCCCCCAACGTGATGAATATGATAAAAGATACAAAAGCAGCAAAAGAGgtgatttagaatgttgcctatatttttgaattgctcattcgaaactgggttagcttgaaagtcacaattcacacgaactcaaataagtcctcactgttttgtggcttttgatctctatcatctgagttgtgctcttgaaatgtacctttgtcatctacctaactgatgtgaatttgcctatgtag

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|110359983|gb|EC922418.1|EC922418
EST:     ATGCACCAAATGTGATGAACATGATAAAGGATACAAAAGCAGCACAAGAG                         GTCCAAGCTCTCAAAGATTTTTTCAACATGCTTTCAAAT
genomic: ATGCACCAAATGTGATGAACATGATAAAGGATACAAAAGCAGCACAAGAGgtaggatgca ... ctttttgtagGTCCAAGCTCTCAAAGATTTTTTCAACATGCTTTCAAAT
EST: gi|110356881|gb|EC920025.1|EC920025
EST:     ATGCACCAAATGTGATGAACATGATAAAGGATACAAAAGCAGCACAAGAG                         GTCCAAGCTCTCAAAGANNNNNNNCA-CATGCTTTTCAA-T
genomic: ATGCACCAAATGTGATGAACATGATAAAGGATACAAAAGCAGCACAAGAGgtaggatgca ... ctttttgtagGTCCAAGCTCTCAAAGATTTTTT-CAACATGCTTT-CAAAT
EST: gi|110357696|gb|EC921371.1|EC921371
EST:     ATGCACCAAATGTGATGAACATGATAAAGGATACAAAAGCAGCACAAGAG                         GTCCAAGCTCTCAAAGATTTTTTCAACATGCTTTCAAAT
genomic: ATGCACCAAATGTGATGAACATGATAAAGGATACAAAAGCAGCACAAGAGgtaggatgca ... ctttttgtagGTCCAAGCTCTCAAAGATTTTTTCAACATGCTTTCAAAT