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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacataagatattaggacttcttcattatacaaaatgaaatcatattatcttcatgcatctgatctatgggtcctttgttttttctgagtaatttattttctcccttctttacagGTTGCAACCGTTCAAGGTCTTTCTGGAACTGGTTCTCTTCGACTTGCTGCGGCCCTTATAGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCATCGC

Basic information

species Vitis vinifera
transcript Vv04s0008g06040.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G13480.1 (Glycine max), 3'ss of exon 5
gtacataagatat-taggacttcttcattatacaaaatg-aaatcatattatcttcatgcatctgatctatgggtcctttgttttttctgagtaatttattttctcccttctttacagGTTGCAACCGTTCAAGGTCTTTCTGGAACTGGTTCTCTTCGACTTGCTGCGGCCCTTATAGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCATCGC
|||  ||    || ||| |  | |  || ||   ||||   ||  | ||||  ||      | |    ||||  |  |||  |||||     || ||   ||  ||  ||     |||||||| || || |||||||||||||||||||||||||| ||||| | ||| || || ||||||||||||||||||||||||||||||||||||||| | |
gtatgtagttgatatagaaaatatagatgatttgaaatttgaaagacattacattt-----tattggttatgaattttttcattttt-----tacttacattattcagttgcaaccagGTTGCCACTGTCCAAGGTCTTTCTGGAACTGGTTCTCTGCGACTAGGTGCAGCTCTGATAGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCAGCTC

upper sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G33050.4 (Glycine max), 3'ss of exon 5
gtacataagatat-taggacttcttcattatacaaaatg-aaatcatatt--atcttcatgcatctgatctatgggtcctttgttttttctgagtaatttattttctcccttctttacagGTTGCAACCGTTCAAGGTCTTTCTGGAACTGGTTCTCTTCGACTTGCTGCGGCCCTTATAGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCATCGC
|||  ||    ||  || |  | |  || ||    |||   || || |||  |  ||  ||  | |||| |||   |  |||   |||  |   ||  ||||||  |  | ||    |||||||| || || |||||||||||||||||||||||||| ||||| | ||| || || ||||| ||||||||||||||||||||||||||||||||| | |
gtaagtagttgatacagaaaatatagatgatttggaatttgaagcacattgcaatttattggttatgatttat---tttttttcatttcttacttacattatttagttgcatc----cagGTTGCCACTGTCCAAGGTCTTTCTGGAACTGGTTCTCTGCGACTAGGTGCAGCTCTGATAGAGCGATATTTTCCTGGGGCAAAAGTTTTGATATCAGCTC
















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|294965358|gb|GW837073.1|GW837073
EST:     CAGCAGAGTTATTATTTGGAGCAGGCAATCCAGTAATTGAGCAACAAAGG                         GTTGCAACCGTTCAAGGTCTTTCTGGAACTGGTTCTCTTCGACTTGCTGCG
genomic: CAGCAGAGTTATTATTTGGAGCAGGCAATCCAGTAATTGAGCAACAAAGGgtacataaga ... ttctttacagGTTGCAACCGTTCAAGGTCTTTCTGGAACTGGTTCTCTTCGACTTGCTGCG
EST: gi|161712612|gb|FC062214.1|FC062214
EST:     CAGCAGAGTTATTATTTGGAGCAGGCAATCCAGTAATTGAGCAACAAAGG                         GTTGCAACCGTTCAAGGTCTTTCTGGAACTGGTTCTCTTCGACTTGCTGCG
genomic: CAGCAGAGTTATTATTTGGAGCAGGCAATCCAGTAATTGAGCAACAAAGGgtacataaga ... ttctttacagGTTGCAACCGTTCAAGGTCTTTCTGGAACTGGTTCTCTTCGACTTGCTGCG
EST: gi|161707802|gb|FC056449.1|FC056449
EST:     CAGCAGAGTTATTATTTGGAGCAGGCAATCCAGTAATTGAGCAACAAAGG                         GTTGCAACCGTTCAAGGTCTTTCTGGAACTGGTTCTCTTCGACTTGCTGCG
genomic: CAGCAGAGTTATTATTTGGAGCAGGCAATCCAGTAATTGAGCAACAAAGGgtacataaga ... ttctttacagGTTGCAACCGTTCAAGGTCTTTCTGGAACTGGTTCTCTTCGACTTGCTGCG
EST: gi|352787010|gb|FQ476043.1|FQ476043
EST:     CAGCAGAGTTATTATTTGGAGCAGGCAATCCAGTAATTGAGCAACAAAGG                         GTTGCAACCGTTCAAGGTCTTTCTGGAACTGGTTCTCTTCGACTTGCTGCG
genomic: CAGCAGAGTTATTATTTGGAGCAGGCAATCCAGTAATTGAGCAACAAAGGgtacataaga ... ttctttacagGTTGCAACCGTTCAAGGTCTTTCTGGAACTGGTTCTCTTCGACTTGCTGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatctatgggtcctttgttttttctgagtaatttattttctcccttctttacagGTTGCAACCGTTCAAGGTCTTTCTGGAACTGGTTCTCTTCGACTTGCTGCGGCCCTTATAGAACGATATTTTCCTGGGGCAAAAGTTTTGATATCATCGC
 atctgat  putative branch site (score: 4)
                                tttattttctcccttc  putative PPT
                  ttttttctgagtaatt  TA-rich tract