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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATTGCGTAAAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAGgttttcaattcttttgtcacccagtcatagcagtgtaactgctttaaatctgttagtaaattaattcatacattttaaaacttatgacag

Basic information

species Vitis vinifera
transcript Vv09s0002g02500.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g02500.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GRMZM2G017086_T03 (Zea mays), 5'ss of exon 7
GTATTGCGTAAAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAGgttttcaattcttttgtcacccagtcatagcagtgtaactgctttaaatctgttagtaaattaattcatacattttaaaacttatgacag----
  | ||||||||||||| || |||||||  |||| |||||||  ||||| |||||||||||||     ||||  |  |   || | |      |||| || || |  |  |  | ||||  |  |||||   ||||     |||  | |     
ACACTGCGTAAAAAATACCCGCAATTTGCACAGCAGCATAATAATGTCTACATGCAACAGgttcc---ttctaatcacctacaattaagagtttgtatctactcttgaatttct-gtaatgttgttcatcttttttcttttttaaaaaatacag

upper sequence: Vv09s0002g02500.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA07G01480.1 (Glycine max), 5'ss of exon 7
GTATTGCGTAAAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAGgttttcaattcttttgtcacccagtcatagcagtgtaactgctttaaatctgt-tagtaaattaattcatacattttaaaacttatgacag
|||||||| ||||||||||||||||||||||||||||||||||| || ||||||||||||||||| || |    || ||||   |   |  ||| | | |||| ||    ||    ||| |   |   ||    |||   |  | | | ||
GTATTGCGGAAAAAATATCCTCAATTTGGCCAGCTGCATAATGGAGTGTTCATGCAACAGgtttttaagttgcatgccaccttatggaattagttttattgctctagtagtgaactgtatacctacctattttatttttcatgtctaatag

upper sequence: Vv09s0002g02500.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA08G20900.1 (Glycine max), 5'ss of exon 7
GTATTGCGTAAAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAGgttttcaattcttttgtcacccagtcatagcagtgtaactgcttta--aatctgttagtaaattaattcatac-attttaaaacttatgacag
|||||||| ||||||||||||||||||||||||||||||||||| || ||||||||||||||||| || | |  || ||||   |   |  ||| | | |||| ||  | |   |  ||| |   ||  ||   |||||  |  |  | ||||
GTATTGCGGAAAAAATATCCTCAATTTGGCCAGCTGCATAATGGAGTTTTCATGCAACAGgtttttaagtttcatgccaccttatggaattagttttattgctctagtagtgaatatgtatacctatctattttatttttcatgtcttaacag

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|110708834|gb|EE086827.1|EE086827
EST:     AAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAG                         GATGCTGAAGAATGTTGGACACAACTTTTATACACTCTTTCTCAGTCACTT
genomic: AAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAGgttttcaatt ... cttatgacagGATGCTGAGGAATGTTGGACACAACTTTTATACACTCTTTCTCAGTCACTT
EST: gi|110722963|gb|EE099729.1|EE099729
EST:     AAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAG                         GATGCTGAAGAATGTTGGACACAACTTTTATACACTCTTTCTCAGTCACTT
genomic: AAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAGgttttcaatt ... cttatgacagGATGCTGAGGAATGTTGGACACAACTTTTATACACTCTTTCTCAGTCACTT
EST: gi|110699590|gb|EE076722.1|EE076722
EST:     AAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAG                         GATGCTGAGGAATGTTGGACACAACTTTTATACACTCTTTCTCAGTCACTT
genomic: AAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAGgttttcaatt ... cttatgacagGATGCTGAGGAATGTTGGACACAACTTTTATACACTCTTTCTCAGTCACTT
EST: gi|110723331|gb|EE100521.1|EE100521
EST:     AAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAA                         GATGCTGAGGAATGTTGGACACAACTTTTATACACTCTTTCTCAGTCACTT
genomic: AAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAGgttttcaatt ... cttatgacagGATGCTGAGGAATGTTGGACACAACTTTTATACACTCTTTCTCAGTCACTT
EST: gi|71864100|gb|DT013155.1|DT013155
EST:     AAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAG                         GATGCTGAGGAATGTTGGACACAACTTTTATACACTCTTTCTCAGTCACTT
genomic: AAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAGgttttcaatt ... cttatgacagGATGCTGAGGAATGTTGGACACAACTTTTATACACTCTTTCTCAGTCACTT
EST: gi|33404796|gb|CF210423.1|CF210423
EST:     AAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAG                         GATGCTGAGGAATGTTGGACACAACTTTTATACACTCTTTCTCAGTCACTT
genomic: AAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAGgttttcaatt ... cttatgacagGATGCTGAGGAATGTTGGACACAACTTTTATACACTCTTTCTCAGTCACTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATTGCGTAAAAAATATCCTCAATTTGGCCAGCTGCATAATGGTGTCTTCATGCAACAGgttttcaattcttttgtcacccagtcatagcagtgtaactgctttaaatctgttagtaaattaattcatacattttaaaacttatgacag

- - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - -  AGCTGC