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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttatttctttcagaatattggttctcttggtgatcttttgccttgccctgtagtaacacttgtggggtttccttcatgatagGGCTTTGGAAGAGAAGCGGGCTCGACTGGGTCTAGTGGAATGTGTGAATCATGATCTTTTACAACCATACCCTGTTCTTCATGAAAAGCCTG

Basic information

species Vitis vinifera
transcript Vv08s0217g00020.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0217g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G07420.1 (Glycine max), 3'ss of exon 7
-----------------gtttatttctttcagaatattggttctcttggtgatcttttgccttg--ccctgtagtaacacttgtggggtt---tccttcatgatagGGCTTTGGAAGAGAAGCGGGCTCGACTGGGTCTAGTGGAATGTGTGAATCATGATCTTTTACAACCATACCCTGTTCTTCATGAAAAGCCTG
                  | ||  | |||||  |  ||| ||  | ||  | | ||     | |   |   | ||  ||| |      ||   |  ||||| |||||||||||||||||||  | |||||  ||||| |||||||||||||||||||||| ||  | ||||| || |||||||| |||||||||||||
gttagcttgatatgataatctaaatgtttcaacactttgtttaacctgaaggttttgaatttgggttctctttgttgcacattaaatcttagctgtttcataatagGGCTTTGGAAGAGAAAAGAGCTCGTTTGGGTTTAGTGGAATGTGTGAATCATGAGCTCCTGCAACCTTATCCTGTTCTGCATGAAAAGCCTG

upper sequence: Vv08s0217g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G29420.1 (Glycine max), 3'ss of exon 7
-------------gtttatttctttcagaatattggttctcttggtgatcttttgccttgccctgtagtaacacttgtggggtt----------tccttcatgatagGGCTTTGGAAGAGAAGCGGGCTCGACTGGGTCTAGTGGAATGTGTGAATCATGATCTTTTACAACCATACCCTGTTCTTCATGAAAAGCCTG
                ||  | |||||  |  | | ||    | | | | ||     | |        |   || |||    ||           | ||||| |||||||||||||||||||  | |||||  | ||| ||||||||||||| |||||||| ||  | ||||| || |||||||| |||||||||||||
gttagcttgattcacctaaatgtttcaatacttagtttaaactcgaggttttgaatttgggttctctttgttacctgttaaattaaatgttaaccctttcataatagGGCTTTGGAAGAGAAAAGAGCTCGGTTAGGTTTAGTGGAATGTGTTAATCATGAGCTCCTGCAACCTTATCCTGTTCTGCATGAAAAGCCTG

upper sequence: Vv08s0217g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G43390.1 (Glycine max), 3'ss of exon 7
---gtttatttctttcagaatattggttct----cttggtgatcttttgcct-tgccctgtagtaacacttgtggggtttccttcatgatagGGCTTTGGAAGAGAAGCGGGCTCGACTGGGTCTAGTGGAATGTGTGAATCATGATCTTTTACAACCATACCCTGTTCTTCATGAAAAGCCTG
    |||  || || ||   | ||| | ||    || | || | || |   | |      || |  |     |    |||  || || |||||||||||||||||||  | |||||||| ||| | |||||||| || || ||||| || || || ||||| |||||| | |||||||||||||
gtaatttgattattgcatgtttttgatactgtgtctagctggtgttctaattattattcttatttcctaaaattccatttgttttataatagGGCTTTGGAAGAGAAAAGAGCTCGACTTGGTTTGGTGGAATGCGTCAACCATGAGCTCTTGCAGCCATATCCTGTTTTGCATGAAAAGCCTG

upper sequence: Vv08s0217g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G18500.1 (Glycine max), 3'ss of exon 7
-------gtttattt---ctttcagaatattg-gttctcttggtgatct--tttgccttgcc----ctgtagtaacacttgtggggtttccttcatgatagGGCTTTGGAAGAGAAGCGGGCTCGACTGGGTCTAGTGGAATGTGTGAATCATGATCTTTTACAACCATACCCTGTTCTTCATGAAAAGCCTG
       | ||| ||     || | |||| || ||    ||||||  ||  ||    ||| |    || |  | | | || |     ||   | || | |||||||||||||||||  | |||||||| ||| | |||||||| || || ||||| || || || ||||| |||||| | |||||||||||||
gtaatttgattacttgcatgtttataatactgtgtctagttggtgtgctaattattattgtcatcactattcttaaaattttatttgttttataataacagGGCTTTGGAAGAGAAAAGAGCTCGACTTGGTTTGGTGGAATGCGTCAACCATGAGCTCTTGCAGCCATATCCTGTTTTGCATGAAAAGCCTG

upper sequence: Vv08s0217g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S80_199V6.1 (Physcomitrella patens), 3'ss of exon 6
-----------------------------------------------------------------------------------------------------------gtttatttctttcagaatattggttctcttggtgatc--ttttgccttgccctg---tagtaacacttg-tggggtttcctt--catgat-agGGCTTTGGAAGAGAAGCGGGCTCGACTGGGTCTAGTGGAATGTGTGAATCATGATCTTTTACAACCATACCCTGTTCTTCATGAAAAGCCTG
                                                                                                            | | | | |||||   | ||   ||  ||  | ||   | || |  | || |    | |||||   || ||   |||  ||  ||| || || ||| | || |||||||||||||| || ||||| ||||| |||||||||||||| ||  | || || ||||| ||||||||||| ||| |||
gtgtggcttccttcgtgctcaaagaaaacttatttactgttatcacatattttctggggcttggatgtctctggatattgaattggccgatgggtgcactttgaaatttctgtgtatttcaacctcttatctccgttcttaattgttctttctataccttcagctggtaacgtgtgctgttattttattgacataatcagAGCTCTAGAGGAGAAGCGGGCTCGTCTTGGTCTTGTGGAGTGTGTGAATCATGAACTGCTTCAGCCCTACCCCGTTCTTCATGAGAAGTCTG

upper sequence: Vv08s0217g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S119_137V6.1 (Physcomitrella patens), 3'ss of exon 6
gtttatttctttcagaatattggttc-tcttggtgatcttttgccttgccctgtag-------taacacttgtggggtttccttcatgat------------agGGCTTTGGAAGAGAAGCGGGCTCGACTGGGTCTAGTGGAATGTGTGAATCATGATCTTTTACAACCATACCCTGTTCTTCATGAAAAGCCTG
    |||| ||    ||||||| ||| ||  |     || || |      |||| |       |  ||  ||   ||| |   || ||||            || |||||||| |||||||| || || || ||||| ||||| |||||||||||||| ||  | || || |||||||| |||||||| || ||||
----attttttcattaatattgattcatcacgacatcctctttctgccttctgttgattcatatggcatgtgctcggtcttaatcgtgattgctgacttttcagAGCTTTGGAGGAGAAGCGAGCACGTCTTGGTCTTGTGGAGTGTGTGAATCATGAGCTACTTCAGCCGTACCCTGTCCTTCATGAGAAACCTG

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|22007317|gb|BQ792351.1|BQ792351
EST:     ATTTTCAGTGAGATTAGCCAAAAGTTTCCCATCATGCCATTTTCAGCAAG                         GGCTTTGGAAGAGAAGCGGGCTCGACTGGGTTTAGTGGAATGTGTGAATCA
genomic: ATTTTCAGTGAGATTAGCCAAAAGTTTCCCATCATGCCATTTTCAGCAAGgtttatttct ... ttcatgatagGGCTTTGGAAGAGAAGCGGGCTCGACTGGGTCTAGTGGAATGTGTGAATCA
EST: gi|46917947|gb|CN547276.1|CN547276
EST:     ATTTTCAGTGAGATTAGCCAAAAGTTTCCCATCATGCCATTTTCAGCAAG                         GGCTTTGGAAGAGAAGCGGGCTCGACTGGGTCTAGTGGAATGTGTGAATCA
genomic: ATTTTCAGTGAGATTAGCCAAAAGTTTCCCATCATGCCATTTTCAGCAAGgtttatttct ... ttcatgatagGGCTTTGGAAGAGAAGCGGGCTCGACTGGGTCTAGTGGAATGTGTGAATCA
EST: gi|37187910|gb|CF607261.1|CF607261
EST:     ATTTTCAGTGAGATTAGCCAAAAGTTTCCCATCATGCCATTTTCAGCAAG                         GGCTTTGGAAGAGAAGCGGGCTCGACTGGGTCTAGTGGAATGTGTGAATCA
genomic: ATTTTCAGTGAGATTAGCCAAAAGTTTCCCATCATGCCATTTTCAGCAAGgtttatttct ... ttcatgatagGGCTTTGGAAGAGAAGCGGGCTCGACTGGGTCTAGTGGAATGTGTGAATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtgatcttttgccttgccctgtagtaacacttgtggggtttccttcatgatagGGCTTTGGAAGAGAAGCGGGCTCGACTGGGTCTAGTGGAATGTGTGAATCATGATCTTTTACAACCATACCCTGTTCTTCATGAAAAGCCTG
                       tagtaac  putative branch site (score: 1)
                                        tttccttcat  putative PPT
     atctttt  TA-rich tract