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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatacatgcttgcaaaagttttaagtttcattatgctatgaagtttcttatgggcttacatggtggggttctatttaccactgcttatctgtcatctgtcttaaaatttgtgactagattagaaaatgtccttctgcagGAATTATCATCAGATTCTTCCCAGCATGTTCGTTCTGCTTTGGCTTCAGTTATTATGGGAATGGCACCTGTTTTAGGAAAG

Basic information

species Vitis vinifera
transcript Vv17s0000g03870.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g03870.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os09g07510.1 (Oryza sativa), 3'ss of exon 6
gtatacatgcttgcaaaagttttaagtttcattatgctatgaagtttcttatgggcttaca--tggtggggttctatttaccactgcttatctgtcatctgtcttaaaatttgtgactagattagaaaatgtccttctgcagGAATTATCATCAGATTCTTCCCAGCATGTTCGTTCTGCTTTGGCTTCAGTTATTATGGGAATGGCACCTGTTTTAGGAAAG
                                                   |||||  ||   |       |  |||| ||   |  |   |||   | | |    |        ||||  ||   || ||  | |||||||||||| ||||||||||| || |||||||||||||| ||||||||||||||||||||||||||||| || || || ||||||
--------------------------------------------------gtgggccaacgcttaaccaaatattattaactggttttctgctgctgtttattcccagca----aactaacttgccaactg--catctgcagGAATTGTCATCAGATTCATCTCAGCATGTTCGTTCAGCTTTGGCTTCAGTTATTATGGGAATGGCCCCGGTCTTGGGAAAG

upper sequence: Vv17s0000g03870.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G102858_T01 (Zea mays), 3'ss of exon 6
gtatacatgcttgcaaaagttttaagtttcattatgctatgaagtttcttatgggcttacatggtggggttctatttac-cactgcttatctgtcatctgtcttaaaattt-gtgactagattagaaaatgtccttctgcagGAATTATCATCAGATTCTTCCCAGCATGTTCGTTCTGCTTTGGCTTCAGTTATTATGGGAATGGCACCTGTTTTAGGAAAG
                                                             || |   |   |    |  ||||  | | ||     |||    || |||  |||  ||  ||      | |        ||||||||||||||||||| || |||||||||||||| |||||||| || ||||||||||||||||| ||||| || ||||||
----------------------------------------------------------gtgtgtttaagcattgcacaaacactattgagct-----ctgcaccaatattcagtggttaacttgtgccttttgtactcatagGAATTATCATCAGATTCATCTCAGCATGTTCGTTCAGCTTTGGCATCGGTTATTATGGGAATGGCTCCTGTATTGGGAAAG

upper sequence: Vv17s0000g03870.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G164352_T04 (Zea mays), 3'ss of exon 6
gtatacatgcttgcaaaagttttaagtttcattatgctatgaagtttcttatgggcttacatggtggggttctatttaccactgcttatctgtcatctgtcttaaaatttgtgactagattagaaaatgtccttctgcagGAATTATCATCAGATTCTTCCCAGCATGTTCGTTCTGCTTTGGCTTCAGTTATTATGGGAATGGCACCTGTTTTAGGAAAG
                                                         |    |    |    |||| | |||   ||   ||  || | ||||   | |    | ||  | |    | || | ||| |||||||| ||||||||||| ||||||||||||||||| ||||| || ||||| |||||||||||||| |||||  | ||||||
--------------------------------------------------------gtgggggcaaagcaattattgaacaccatttcgttgctatttttcttctgagtga--attaactcatgccaagtgcatctacagGAATTGTCATCAGATTCATCCCAGCATGTTCGTTCAGCTTTAGCCTCAGTGATTATGGGAATGGCTCCTGTACTGGGAAAG

upper sequence: Vv17s0000g03870.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G122135_T01 (Zea mays), 3'ss of exon 6
gtatacatgcttgcaaaagttttaagtttcattatgctatgaagtttcttatgggcttacatggtggggttctatttaccactgcttatctgtcatctgtcttaaaatttgtgactagattagaaaatgtccttctgcagGAATTATCATCAGATTCTTCCCAGCATGTTCGTTCTGCTTTGGCTTCAGTTATTATGGGAATGGCACCTGTTTTAGGAAAG
                                                              ||||     | |||   |  |   |  || |  | | ||| |     | | ||||| | |    |  | | | |  ||||||| ||||||||||| ||||||||||||||||| ||||| || ||||| |||||||||||||| |||||  | ||||||
-----------------------------------------------------------gtgggtgcaaagcaattattcgttttgttgctattttttttctgagtgaat-taactagttcatgctaattgcatttatagGAATTGTCATCAGATTCATCCCAGCATGTTCGTTCAGCTTTAGCCTCAGTCATTATGGGAATGGCTCCTGTACTGGGAAAG

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|156738161|gb|EV242282.1|EV242282
EST:     ATTTTTGACCCC-GAACTTGCAAATCAGCATAT-CTTCCNTTGTGTGAAG                         GA-TTATCATCA
genomic: ATTTT-GAACCCAGAACTTGCAATTCAGCATATTCTTCC-TTGTGTGAAGgtatacatgc ... ccttctgcagGAATTATCATCA
EST: gi|110696169|gb|EE075018.1|EE075018
EST:     GGATTTTGAACC-AGAACTTGCAATTCAGCATATTCTTCCTTGTGTGAAG                         GA-TTATCATC
genomic: GGATTTTGAACCCAGAACTTGCAATTCAGCATATTCTTCCTTGTGTGAAGgtatacatgc ... ccttctgcagGAATTATCATC
EST: gi|30302057|gb|CB978851.1|CB978851
EST:     GGATTTTGAACCCAGAACTTGCAATTCAGCATATTCTTCCTTGTGTGAAG                         GAATTATCATCAGATTCTTCCCAGCATGTTCGTTCTGCTTTGGCTTCAGTT
genomic: GGATTTTGAACCCAGAACTTGCAATTCAGCATATTCTTCCTTGTGTGAAGgtatacatgc ... ccttctgcagGAATTATCATCAGATTCTTCCCAGCATGTTCGTTCTGCTTTGGCTTCAGTT
EST: gi|71866595|gb|DT015650.1|DT015650
EST:     GGATTTTGAACCCAGAACTTGCAATTCAGCATATTCTTCCTTGTGTGAAG                         GAATTATCATCAGATTCTTCCCAGCATGTTCGTTCTGCTTTGGCTTCAGTT
genomic: GGATTTTGAACCCAGAACTTGCAATTCAGCATATTCTTCCTTGTGTGAAGgtatacatgc ... ccttctgcagGAATTATCATCAGATTCTTCCCAGCATGTTCGTTCTGCTTTGGCTTCAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatctgtcatctgtcttaaaatttgtgactagattagaaaatgtccttctgcagGAATTATCATCAGATTCTTCCCAGCATGTTCGTTCTGCTTTGGCTTCAGTTATTATGGGAATGGCACCTGTTTTAGGAAAG
                                          tgtccttct  CT-rich tract
              tcttaaaattt  TA-rich tract