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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgttgcatctttattgtttttaacttactgtaggatagttggtctacttatgtgattggatttgtgcctgatttgaagtttacaaattttcaaacagGTCTTGTTGATTATGACATGCTTGAGAAAACAGCTAATCTTTTTCGACCAAAACTCATTATTGCTGGTGCTAGTGCTTATCCTCGAGATTTTGATTATCC

Basic information

species Vitis vinifera
transcript Vv04s0008g00770.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g00770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G09640.1 (Glycine max), 3'ss of exon 1
gtgttgcatctttattgtttttaacttactgtaggatagttggtctacttatgtgattggatttgtgcctgatttgaagtttacaaattttcaaacagGTCTTGTTGATTATGACATGCTTGAGAAAACAGCTAATCTTTTTCGACCAAAACTCATTATTGCTGGTGCTAGTGCTTATCCTCGAGATTTTGATTATCC
|||||   | |||  |  ||| || ||| |  |      ||||     || || |||   |||  |   | |     |   | | |||     || ||||||| |||||||||| ||||| |||||||| |||| ||| |||||||||||||||||||||||||||||||||||||||||| ||||  |||| || ||
gtgttttttgttttct-ctttaaaattattacaaatatattggctcctttgtgagat-aaattattctttaacccaca---tccgaatcac--aatagGTCTTATTGATTATGATATGCTGGAGAAAACTGCTACTCTCTTTCGACCAAAACTCATTATTGCTGGTGCTAGTGCTTATCCTTGAGACATTGACTACCC

upper sequence: Vv04s0008g00770.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G29410.1 (Glycine max), 3'ss of exon 5
gtgttgcatctttattgtttttaacttactgtaggatagttggtctacttatgtgattggatttgtgcctgatttgaagtttacaaattttcaaacagGTCTTGTTGATTATGACATGCTTGAGAAAACAGCTAATCTTTTTCGACCAAAACTCATTATTGCTGGTGCTAGTGCTTATCCTCGAGATTTTGATTATCC
|| ||   | |||  |   || || ||| |  ||     || |     || || |||   | || |   | |    | |||   |    |   || ||||||| |||||||||| ||||| |||||||| |||| ||| ||||| |||||||||||| ||||||||||||||||||||||||| ||  |||| || ||
gtattttttgttttct-cattaaaattattacagatatatttgctcctttgtgagat--aacttattttttaacccacgttggaa----tcacaatagGTCTTATTGATTATGATATGCTGGAGAAAACTGCTACTCTGTTTCGTCCAAAACTCATTGTTGCTGGTGCTAGTGCTTATCCTCGGGACATTGACTACCC
















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|110724687|gb|EE100735.1|EE100735
EST:     CACATCAATTTATTTTGAGTCTATGCCTTATCGACTCGATGAATCTACAG                         GTCTTGTTGATTATGACATGCTTGAGAAAACAGCTAATCTTTTTCGACCAA
genomic: CACATCAATTTATTTTGAGTCTATGCCTTATCGACTTGATGAATCTACAGgtgttgcatc ... tttcaaacagGTCTTGTTGATTATGACATGCTTGAGAAAACAGCTAATCTTTTTCGACCAA
EST: gi|110403131|gb|EC964343.1|EC964343
EST:     CACATCAATTTATTTTGAGTCTATGCCTTATCGACTTGATGAATCTACAG                         GTCTTGTTGATTATGACATGCTTGAGAAAACAGCTAATCTTTTTCGACCAA
genomic: CACATCAATTTATTTTGAGTCTATGCCTTATCGACTTGATGAATCTACAGgtgttgcatc ... tttcaaacagGTCTTGTTGATTATGACATGCTTGAGAAAACAGCTAATCTTTTTCGACCAA
EST: gi|110378905|gb|EC944062.1|EC944062
EST:     CACATCAATTTATTTTGAGTCTATGCCTTATCGACTCGATGAATCTACAG                         GTCTTGTTGATTATGACATGCTTGAGAAAACAGCTAATCTTTTTCGACCAA
genomic: CACATCAATTTATTTTGAGTCTATGCCTTATCGACTTGATGAATCTACAGgtgttgcatc ... tttcaaacagGTCTTGTTGATTATGACATGCTTGAGAAAACAGCTAATCTTTTTCGACCAA
EST: gi|71862785|gb|DT011840.1|DT011840
EST:     CACATCAATTTATTTTGAGTCTATGCCTTATCGACTTGATGAATCTACAG                         GTCTTGTTGATTATGACATGCTTGAGAAAACAGCTAATCTTTTTCGACCAA
genomic: CACATCAATTTATTTTGAGTCTATGCCTTATCGACTTGATGAATCTACAGgtgttgcatc ... tttcaaacagGTCTTGTTGATTATGACATGCTTGAGAAAACAGCTAATCTTTTTCGACCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctacttatgtgattggatttgtgcctgatttgaagtttacaaattttcaaacagGTCTTGTTGATTATGACATGCTTGAGAAAACAGCTAATCTTTTTCGACCAAAACTCATTATTGCTGGTGCTAGTGCTTATCCTCGAGATTTTGATTATCC
                       gcctgat  putative branch site (score: 4)
                                            ttttc  putative PPT
                                    tttacaaattttcaaa  TA-rich tract