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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctggcttatttcaaccattttcttattgatctctagaatttgactttgccatttataagttcttctaaacttgcttattaatgtgcatatgccatcacatagGCATCAGTGGAACTTCAAGGCATCAAAGGAATGTGGTCATTGAGATCTTCTACTGATGATCCACATGACACCTTCTTGGTTGTAAGCTTTATCAGTGAGA

Basic information

species Vitis vinifera
transcript Vv10s0003g04360.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 12
------------------------gtctggcttatttcaaccattttcttatt------------gatctctagaatttgactttgccatttat---aagttcttctaaacttgcttattaatgtgcatatgccatc-acatagGCATCAGTGGAACTTCAAGGCATCAAAGGAATGTGGTCATTGAGATCTTCTACTGATGATCCACATGACACCTTCTTGGTTGTAAGCTTTATCAGTGAGA
                        || |||  |||||  |||     |  |||             |  |  | || |  |  ||   ||| ||   ||  || |   ||  |  | |||  | |    |||   |  |  |||||||| || ||||||||||| |||||||||||||||||| ||||||| || || ||||||||   ||| || ||  ||||||| || ||||| ||||| |
gtcagctccccttcctctacctcagtgtggaatatttgcacccaagacacattcaaaaggaatggaaattggaaaaataaatctttatattaatgacaaactccttacaaaatattaatttttttatgcatgtatttgatctagGCATCGGTAGAACTTCAAGGTATCAAAGGAATGTGGTCACTGAGATCCTCAACAGATGATCCTTTTGATACTTTTCTGGTTGTGAGTTTTATAAGTGAAA

upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA05G30530.1 (Glycine max), 3'ss of exon 12
-----------------------------------------gtctggcttatttcaaccattttcttattgatctctagaatttgactttgccatttataagttcttctaaacttgcttattaatgtgcatatgccatca-catagGCATCAGTGGAACTTCAAGGCATCAAAGGAATGTGGTCATTGAGATCTTCTACTGATGATCCACATGACACCTTCTTGGTTGTAAGCTTTATCAGTGAGA
                                             | || |||  ||     |    ||||        ||| |   | |  || |   |    | |   ||  |  | |||  | |    |||   |     |||||||| || ||||||||||| |||||||||||||||||| | ||||| || || ||||||||   ||| || ||  ||||||| || ||||| ||||| |
gtcagctccccttcctccaccacagtgtggaacatttgctcccaagactcattcaaaaggaatggaaattggaaaaacaaatct--ttatatcaatggcacacaccttacaaaatattaatttttttatgcatgtatttggtctagGCATCGGTAGAACTTCAAGGTATCAAAGGAATGTGGTCACTTAGATCCTCAACAGATGATCCTTTTGATACTTTTCTGGTTGTGAGTTTTATAAGTGAAA

upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT4G05420.2 (Arabidopsis thaliana), 3'ss of exon 11
gtctggcttatttcaaccattttcttattgatctctagaatttgactttgccatttataagttcttctaaacttgcttattaatgtgcatatgccatcacat---agGCATCAGTGGAACTTCAAGGCATCAAAGGAATGTGGTCATTGAGATCTTCTACTGATGATCCACATGACACCTTCTTGGTTGTAAGCTTTATCAGTGAGA
                      | | ||| ||      ||| | | | |    | |  |   | |||| |  | | || |  || |  | |  ||     ||   |||| || |||||||||||||| ||||||||||||||||| |||| |||||| | ||||||  |    || || ||  | ||||| |||||||||||||| |
---------------------gtttgatttatgcgcgaaatctcattgtcttgtatgcacaattttctcatatggtttctatatcttaaaactccgctctattacagGCGTCTGTGGAACTTCAAGGTATCAAAGGAATGTGGTCGTTGAAATCTTCAATTGATGAAGCCTTCGATACATTTCTTGTTGTTAGCTTTATCAGTGAAA

upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 3'ss of exon 12
gtctggcttatttcaaccattttcttattgatctctagaatttgactttgccatttataagttcttctaaacttgcttattaatgtgcatatgccatcacatagGCATCAGTGGAACTTCAAGGCATCAAAGGAATGTGGTCATTGAGATCTTCTACTGATGATCCACATGACACCTTCTTGGTTGTAAGCTTTATCAGTGAGA
|| |||  ||| | |     ||    |||  ||||   | | | |  |   ||   |||   || ||| |  |    || |||    |   ||  ||     |||| || |||||||||||||||||||||||||||||||| |||| ||| || | ||||||  |   ||| || ||| | || || || ||||||||||| |
gtttggtgtatattag--gattgtcaatttgtctc---agtgtcatgtaagca---atattctcatctgatgtaatctaataaaactctgctgt-atattgcagGCGTCCGTGGAACTTCAAGGCATCAAAGGAATGTGGTCGTTGAAATCGTCAATTGATGAAGCCTTTGATACATTCCTTGTAGTTAGTTTTATCAGTGAAA

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|294966440|gb|GW839547.1|GW839547
EST:     AAGATGGTTCTCTTCGCATTGTTCGAAATGGAATAGGAATCAATGAACAG                         GCATCAGTGGAACTTCAAGGCATCAAAGGACTGTGGTCATTGAGATCTTCT
genomic: AAGATGGTTCTCTTCGCATTGTTCGAAATGGAATAGGAATCAATGAACAGgtctggctta ... catcacatagGCATCAGTGGAACTTCAAGGCATCAAAGGAATGTGGTCATTGAGATCTTCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccatttataagttcttctaaacttgcttattaatgtgcatatgccatcacatagGCATCAGTGGAACTTCAAGGCATCAAAGGAATGTGGTCATTGAGATCTTCTACTGATGATCCACATGACACCTTCTTGGTTGTAAGCTTTATCAGTGAGA
                            tattaat  putative branch site (score: 2)
                           ttattaatgt  TA-rich tract