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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttactccacaacccatattctttaatttttgctgattccttttttccaactggtttttttcctttcctttctctttttttttggctactatgatttaagtatttgtctttacattaaattactgattttcctttcgcttttggatctctacatagGACTGTCCGTGCAATAAGTTCTGATCGTGGGAAAGTGGTATCAGGATCTGATGATCAGTCTGTTATTGTATGGGATAAACAAACATCTCAACTTCTAGAA

Basic information

species Vitis vinifera
transcript Vv17s0000g03950.t01
intron # 24
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GRMZM2G074466_T01 (Zea mays), 3'ss of exon 5
gtatttactccacaacccatattctttaatttttgctgattccttttttccaactggtttttttcctttcctttctctttttttttggctactatgatttaagtatttgtctttacattaaattactgattttcctttcgcttttggatctctacatagGACTGTCCGTGCAATAAGTTCTGATCGTGGGAAAGTGGTATCAGGATCTGATGATCAGTCTGTTATTGTATGGGATAAACAAACATCTCAACTTCTAGAA
                                           || | |   | || | ||       |  |   |  |   |||||  |||  ||      |  ||| |||    || ||| ||   ||||    |||   ||||           ||| |  | ||  |||| ||||| |||||||| ||| | || || ||| |||||||||||||||| || ||||||||||| || || | | | ||| | |||
------------------------------------------tttctcttttattgttcttcagatagttgtagattatccattttgtttaccttgtcccctgattttatct----atcaaagtatcaatttg---ttcaaatttg----------cagGGCAATTCGAACAATCAGTTCAGATCGTGGCAAAATAGTTTCTGGAGCTGATGATCAGTCTGTCATAGTATGGGATAAGCAGACTTTTAAGCTTTTGGAA

upper sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA05G35210.1 (Glycine max), 3'ss of exon 7
gtatttactccacaacccatattctttaatttttgctgattccttttttccaactggtttttttcctttcctttctctttttttttggctactatgatttaagtatttgtctttacattaaattactgattttcctttcgcttttggatctctacatagGACTGTCCGTGCAATAAGTTCTGATCGTGGGAAAGTGGTATCAGGATCTGATGATCAGTCTGTTATTGTATGGGATAAACAAACATCTCAACTTCTAGAA
                                                           || ||||| ||  |  ||   |||  ||     |||| |||   |     |||||  ||  || || ||  |  ||||  |||| ||  | |  |  ||| ||  ||||||| |||||||| ||| | ||||| ||||| |||||||||||||||||||||||| | || |||||||| |||||| ||||||||||||||
----------------------------------------------------------gttcttcctctcactcatcaaatttcctg-----tatggttt---tcaacatctttgaat--aagtaatgtgtaacctt--gcttctgtctttaaatgtagAACCATCCGTGCCATAAGTTCAGATAGGGGGAAGGTGGTGTCAGGATCTGATGATCAGTCTGTTTTGGTGTGGGATAAGCAAACAACTCAACTTCTAGAA

upper sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA08G04510.1 (Glycine max), 3'ss of exon 24
gtatttactccacaacccatattctttaatttttgctgattccttttttccaactggtttttttcctttcctttctctttttttttggctactatgatt-taagtatttgtctttacattaaattactgattttcctttcgcttttggatctctacatagGACTGTCCGTGCAATAAGTTCTGATCGTGGGAAAGTGGTATCAGGATCTGATGATCAGTCTGTTATTGTATGGGATAAACAAACATCTCAACTTCTAGAA
                                                              ||| ||  ||  ||| ||   |||  |   |||| || | |  || | |   || | |||| || ||    |||||||  || ||  | |  |  ||| ||| |||| || |||||||| ||| | ||||| ||||| |||||||||||||||||||||||| | || |||||||| |||||| ||||||||||||||
-------------------------------------------------------------gttctttctctcactcattaaattt--cctgtatggttgtcaacatctttgaata-agtaaaataatgtgaatcctttc--ttctgtctttaaatgtagAACTATCCGCGCCATAAGTTCAGATAGGGGGAAGGTGGTGTCAGGATCTGATGATCAGTCTGTTTTGGTGTGGGATAAGCAAACAACTCAACTTCTAGAA

upper sequence: Vv17s0000g03950.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: AT1G49040.1 (Arabidopsis thaliana), 3'ss of exon 24
gtatttactccacaacccatattctttaatttttgctgattccttttttccaactggtttttttcctttcctttctctttttttttggctactatgatttaagtatttgtctttacattaaattactgattttcctttcgcttttggatctctacatagGACTGTCCGTGCAATAAGTTCTGATCGTGGGAAAGTGGTATCAGGATCTGATGATCAGTCTGTTATTGTATGGGATAAACAAACATCTCAACTTCTAGAA
                             | |   ||  ||| | ||  ||   || |   | ||      | | | |||||||   | || | |    || ||  | || | |  |  |         || |  |||   |||    | |  |  ||| || || ||||| ||||| |||||  | || ||  | || |||||||| |||||||  ||||| || |||||||| ||||| ||| ||||||||||||||
----------------------------gtatacactatttcttattcacc--ttgatggctctcgggagttatgttttttttt---gttaatttttcatatgtggtggtttctttaacagcgcttcctttcttgttttcttttcaacttttgatgtagAACCGTGCGTGCTATAAGCTCTGACAGAGGAAAGATAGTTTCAGGATCAGATGATCTATCTGTGATCGTATGGGACAAACAGACAACTCAACTTCTAGAA

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|110367943|gb|EC931898.1|EC931898
EST:     CCTACTCTTCGTGGTTCTGAACTTAGGGCAACTTTGAAAGGACATACAAA                         GACTGTCCGTGCAATAAGTTCTGATCGTGGGAAAGTGGTATCAGGATCTGA
genomic: CCTACTCTTCGTGGTTCTGAACTTAGGGCAACTTTGAAAGGACATACAAAgtatttactc ... ctctacatagGACTGTCCGTGCAATAAGTTCTGATCGTGGGAAAGTGGTATCAGGATCTGA
EST: gi|110410864|gb|EC976558.1|EC976558
EST:     CCTACTCTTCGTGGTTCTGAACTTAGGGCAACTTTGAAAGGACATACAAA                         GACTGTCCGTGCAATAAGTTCTGATCGTGGGAAAGTGGTGTCAGGATCTGA
genomic: CCTACTCTTCGTGGTTCTGAACTTAGGGCAACTTTGAAAGGACATACAAAgtatttactc ... ctctacatagGACTGTCCGTGCAATAAGTTCTGATCGTGGGAAAGTGGTATCAGGATCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgtctttacattaaattactgattttcctttcgcttttggatctctacatagGACTGTCCGTGCAATAAGTTCTGATCGTGGGAAAGTGGTATCAGGATCTGATGATCAGTCTGTTATTGTATGGGATAAACAAACATCTCAACTTCTAGAA
                   tactgat  putative branch site (score: 2)
                                            tctctac  putative PPT
       tttacattaaattact  TA-rich tract