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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtattactcgttcaaagtttatgctaataccagaaaattgcttacaatttgaatttcagtctcgataattctttgttctatctatccttgtttggatgaagGTTATCGCATATGATTTTGGGATCAAGCATAATATATTAAGACGTTTGGCATCCTATGGCTGTAAAATCACAGTTGTCCCATCAACATGGCCAGCTTCAG

Basic information

species Vitis vinifera
transcript Vv04s0044g00550.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0044g00550.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G029573_T01 (Zea mays), 3'ss of exon 8
gttagtattactcgttcaaagtttatgctaataccagaaaattgcttacaatttgaatttcagtctcgataattctttgttctatctatccttgtttggatgaagGTTATCGCATATGATTTTGGGATCAAGCATAATATATTAAGACGTTTGGCATCCTATGGCTGTAAAATCACAGTTGTCCCATCAACATGGCCAGCTTCAG
|| ||||||     || | | | | | | |   ||| ||              | ||| |    |  ||||    |  | |  || | | ||         | ||||  | || || || ||||| |||||||||||||| || ||||| ||| |||| ||||| || ||||| |||||||| ||| |||  ||||| |||||||
gtcagtattgactattgacactctttcccacacccaaaa--------------taaatattgtacctgata----tgagcttcatttcttct---------gtagGTGGTTGCCTACGACTTTGGTATCAAGCATAATATTTTGAGACGATTGACATCATATGGATGCAAAATAACAGTTGTTCCAGCAAATTGGCCTGCTTCAG

upper sequence: Vv04s0044g00550.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G32190.1 (Glycine max), 3'ss of exon 7
gttagtattactcgttcaaagtttatgctaataccagaaaattgcttacaatttgaatttcagtctcgataattctttgttctatctatccttgtttggatgaagGTTATCGCATATGATTTTGGGATCAAGCATAATATATTAAGACGTTTGGCATCCTATGGCTGTAAAATCACAGTTGTCCCATCAACATGGCCAGCTTCAG
|| |||||||   ||  |   ||  ||    ||        || |||     |||| |   |      |||| |   | | |    | |  |   |       ||||| | || ||||||||||| || |||||||||||| | || || |||||||||||||||||||||||||| || || ||||| |||||||| || ||||
gtaagtattagcagtgtattattc-tgtgggtattgcctccttccttttg-cttgactaatac-----ataagttaatatacctaatgtggtgaatgaaccatagGTTGTTGCTTATGATTTTGGAATTAAGCATAATATACTTAGGCGCTTGGCATCCTATGGCTGTAAAATCACTGTGGTGCCATCTACATGGCCGGCATCAG

upper sequence: Vv04s0044g00550.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G15510.4 (Glycine max), 3'ss of exon 7
gttagtattactcgttcaaagtttatgctaataccagaaaattgcttacaatttgaatttcagtctcgataattctttgttctatctatccttgtttggatgaagGTTATCGCATATGATTTTGGGATCAAGCATAATATATTAAGACGTTTGGCATCCTATGGCTGTAAAATCACAGTTGTCCCATCAACATGGCCAGCTTCAG
                       || | |||| | |||||| |  ||     ||||  ||  || |   |||||  | ||   ||         |     || ||||  | || ||||||||||| ||||||||||||||| | || ||  | ||||| |||||||| |||||||| ||||| ||||  ||||||||||| ||||
----------------------gtaag-taatgc-agaaaactttttg----ttgaccttt-gtgtaattaattaat-gtcacatgctgatgaatgaaattgcagGTAGTTGCTTATGATTTTGGAATCAAGCATAATATACTTAGGCGCCTAGCATCTTATGGCTGCAAAATCACCGTTGTTCCATGTACATGGCCAGCATCAG

upper sequence: Vv04s0044g00550.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G39390.1 (Glycine max), 3'ss of exon 7
gttagtattactcgttcaaagtttatgctaataccagaaaattgcttacaatttgaatttcagt-ctcgataattc-tttgttctatctatccttgtttgga--tgaagGTTATCGCATATGATTTTGGGATCAAGCATAATATATTAAGACGTTTGGCATCCTATGGCTGTAAAATCACAGTTGTCCCATCAACATGGCCAGCTTCAG
                                     |  | |||  | || || |  || | |  | |||||||  ||  | | |  |     ||  || |  || ||||  | || ||||||||||| ||||||||||||||| | || ||  | ||||| |||||||| |||||||| ||||| ||||  |||||| |||| ||||
----------------------------------gtaagtagtgcaaaaaactttatgttgattattggataattaattaatgccacatgctgatgaatgaaattgcagGTAGTTGCTTATGATTTTGGAATCAAGCATAATATACTTAGGCGCCTAGCATCTTATGGCTGCAAAATCACTGTTGTGCCATGTACATGGTCAGCATCAG

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|161718757|gb|FC067323.1|FC067323
EST:     GCTCAGAATGGGATTTTAACTCTAATGAGACAGCTGGAGAAACTTTTCGT                         GTTATCGCATATGATTTTGGGATCAAGCATA-TATATTAAGACGTTTGGC-
genomic: GCTCAGAATGGGATTTTAACTCTAATGAGACAGCTGGAGAAACTTTTCGTgttagtatta ... ttggatgaagGTTATCGCATATGATTTTGGGATCAAGCATAATATATTAAGACGTTTGGCA
EST: gi|110693364|gb|EE069531.1|EE069531
EST:     GCTCAGAATGGGATTTTAACTCTAATGAGACAGCTGGAGAAACTTTTCGT                         GTTATCGCATATGATTTTGGGATCAAGCATAATATATTAAGACGTTTGGCA
genomic: GCTCAGAATGGGATTTTAACTCTAATGAGACAGCTGGAGAAACTTTTCGTgttagtatta ... ttggatgaagGTTATCGCATATGATTTTGGGATCAAGCATAATATATTAAGACGTTTGGCA
EST: gi|71883756|gb|DT032811.1|DT032811
EST:     GCTCAGAATGGGATTTTAACTCTAATGAGACAGCTGGAGAAACTTTTCGT                         GTTATCGCATATGATTTTGGGATCAAGCATAATATATTAAGACGTTTGGCA
genomic: GCTCAGAATGGGATTTTAACTCTAATGAGACAGCTGGAGAAACTTTTCGTgttagtatta ... ttggatgaagGTTATCGCATATGATTTTGGGATCAAGCATAATATATTAAGACGTTTGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgaatttcagtctcgataattctttgttctatctatccttgtttggatgaagGTTATCGCATATGATTTTGGGATCAAGCATAATATATTAAGACGTTTGGCATCCTATGGCTGTAAAATCACAGTTGTCCCATCAACATGGCCAGCTTCAG
                                      tccttgttt  CT-rich tract
                  ataattcttt  TA-rich tract