Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtgttcttaactatattctatgagtttgttgaagtatatcatggaaatatattcacatgaattgcatatatgcattcttccattgaatttctcaaacttatgttttgacgaaggtgacagGATCATGAGGAATCTGTTGAAGAGTTTGTGCGTCGTAATCTTGGTGATGAGGTTTTTGAACGCCTGATAGAGCCATTTTGTTCAG

Basic information

species Vitis vinifera
transcript Vv07s0005g02540.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g02540.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G27890.1 (Glycine max), 3'ss of exon 2
gtgcgtgttcttaactatattctatgagtttgttgaagtatatcatggaaatatattcacatgaattgcatatatgcattcttccattgaatttctca--aacttatgttttgacgaaggtgacagGATCATGAGGAATCTGTTGAAGAGTTTGTGCGTCGTAATCTTGGTGATGAGGTTTTTGAACGCCTGATAGAGCCATTTTGTTCAG
||| ||  ||||  ||   |||| ||| ||||||    | |   ||| ||   | | |  | | ||       |    |||||   ||   |||||||   | |    | ||||| ||||||||||| |||||||||||| |||||||||||||| ||||| || |||||||||||||||||||||||  |||||||||| ||||||||||
gtgtgtcctctttcct---ttctttgattttgtt----tgtcaaatgcaa---tgtccggaaggataaagggcaactgttcttaattttgttttctcatggaatataatgttgacaaaggtgacagGGTCATGAGGAATCGGTTGAAGAGTTTGTTCGTCGGAACCTTGGTGATGAGGTTTTTGAACGGTTGATAGAGCCTTTTTGTTCAG

upper sequence: Vv07s0005g02540.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G01000.1 (Glycine max), 3'ss of exon 3
gtgcgtgttcttaactatattctatgagtttgttgaagtatatcatggaaatatattcacatgaattgcatatatgcattcttccattgaatttctca--aacttatgttttgacgaaggtgacagGATCATGAGGAATCTGTTGAAGAGTTTGTGCGTCGTAATCTTGGTGATGAGGTTTTTGAACGCCTGATAGAGCCATTTTGTTCAG
||| ||  ||||  ||   |||  ||| ||||||    | | |||     | || |    | | ||   |   |    |||||   ||   |||||||   | |    | ||||| |||||||| || ||||||||||   |||||||||||||| ||||| || ||||||||||| |||||||||||  |||||||||| ||||||||||
gtgtgtcctctttcct---ttcattgattttgtt----tgtgtcaaatgca-atgtcaggaaggataaaacgcaactgttcttaattttgttttctcatggaatataatgttgacaaaggtgacggggtcatgaggaag-

upper sequence: Vv07s0005g02540.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G01690.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgcgtgttcttaactatattctatgagtttgttgaagtatatcatggaaatatattcacatgaattgcatatatgcattcttccattgaatttctcaaacttatgttttgacgaaggtgacagGATCATGAGGAATCTGTTGAAGAGTTTGTGCGTCGTAATCTTGGTGATGAGGTTTTTGAACGCCTGATAGAGCCATTTTGTTCAG
                      | ||  ||  ||      | | |    |||||  |     |   |  || |  | |   |    |    ||       ||||   |||| | ||||||||||| || ||| |||||||| || |||||||| || ||||| || ||||||||||||||||| |||||||| || || ||||||||||
---------------------gtgtgtattc-ttacgaccttttagatcaatatgatttttagggctttatgttggtagaatctgctcatgtt-------cttagagtttggcaaaggtgacagGGTCGTGAAGAATCTGTGGAGGAGTTTGTACGGCGTAACCTCGGTGATGAGGTTTTTGAGCGCCTGATTGAACCGTTTTGTTCAG

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|352782141|gb|FQ470043.1|FQ470043
EST:     GAAAACTCAGGGCTGGGTTTGGTGCCCTTGGCATTCGACCTCCTCCACCA                         GATCATGAGGAATCTGTTGAAGAGTTTGGGCGTCATAATCATGGTGATGAG
genomic: GAAAACTCAGGGCTGGGTTTGGTGCCCTTGGCATTCGACCTCCTCCACCAgtgcgtgttc ... aaggtgacagGATCATGAGGAATCTGTTGAAGAGTTTGTGCGTCGTAATCTTGGTGATGAG
EST: gi|352782117|gb|FQ470019.1|FQ470019
EST:     GAAAACTCAGGGCTGGGTTTGGTGCCCTTGGCATTCGACCTCCTCCACCA                         GATCATGAGGAATCTGTTGAAGAGTTTGTGCGTCGTAATCTTGGTGATGAG
genomic: GAAAACTCAGGGCTGGGTTTGGTGCCCTTGGCATTCGACCTCCTCCACCAgtgcgtgttc ... aaggtgacagGATCATGAGGAATCTGTTGAAGAGTTTGTGCGTCGTAATCTTGGTGATGAG
EST: gi|352764041|gb|FQ467611.1|FQ467611
EST:     GAAAACTCAGGGCTGGGTTTGGTGCCCTTGGCATTCGACCTCCTCCACCA                         GATCATGAGGAATCTGTTGAAGAGTTTGT
genomic: GAAAACTCAGGGCTGGGTTTGGTGCCCTTGGCATTCGACCTCCTCCACCAgtgcgtgttc ... aaggtgacagGATCATGAGGAATCTGTTGAAGAGTTTGT
EST: gi|352764189|gb|FQ471169.1|FQ471169
EST:     GAAAACTCAGGGCTGGGTTTGGTGCCCTTGGCATTCGACCTCCTCCACCA                         GATCATGAGGAATCTGTTGAAGAGTTTGTGCGTCGTAATCTTGGTGATGAG
genomic: GAAAACTCAGGGCTGGGTTTGGTGCCCTTGGCATTCGACCTCCTCCACCAgtgcgtgttc ... aaggtgacagGATCATGAGGAATCTGTTGAAGAGTTTGTGCGTCGTAATCTTGGTGATGAG
EST: gi|110381438|gb|EC934459.1|EC934459
EST:     CATTCGACCTCCTCCACCA                         GATCATGAGGAATCTGTTGAAGAGTTTGTGCGTCGTAATCTTGGTGATGAG
genomic: CATTCGACCTCCTCCACCAgtgcgtgttc ... aaggtgacagGATCATGAGGAATCTGTTGAAGAGTTTGTGCGTCGTAATCTTGGTGATGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatatgcattcttccattgaatttctcaaacttatgttttgacgaaggtgacagGATCATGAGGAATCTGTTGAAGAGTTTGTGCGTCGTAATCTTGGTGATGAGGTTTTTGAACGCCTGATAGAGCCATTTTGTTCAG
                                     ttttgac  putative branch site (score: 3)
                attgaattt  TA-rich tract