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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaatttctatatcaatatctgtttcttgttttcaatgcagtaatatattgctctaacactgtggtctgtcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAGTCCGAATGAGTTACTGTTGTTAGATACTGATTAATGAGATTGTTAAATT

Basic information

species Vitis vinifera
transcript Vv09s0002g06040.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g06040.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G22430.1 (Glycine max), 3'ss of exon 5
gttaatttctatatcaatatctg--tttcttgttt-tcaatgcagtaatatattgctctaac--actgtggtctgtcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAGTCCG-----AATGAGTTACTGTTGTTAGATACTGATTA-ATGAGATTGTTAAATT
|||  || |  | | |||   |   ||| ||  || | | |    | || || ||  ||     |   |  | |  ||   ||||||||||||| ||||||||||||| |||||  |  |  |    |||  ||    ||       |||   | | ||   ||||   | ||| | ||  |||       
gttggttcccgtttaaatgcttagtttttttacttgtgactattattatgtactgtactgtttaataatatttttaccctcgtagACTGGTGAATTGAAGGAAAAGCTTAAAGATATTACTTCCAAGCAGTGAACACACGCCTAAGGTGAAGAAGTTTTAAGAGATGTAGTTTACAAGAACTTGC------
















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|110362287|gb|EC925809.1|EC925809
EST:     TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG                         ACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
genomic: TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttct ... tcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
EST: gi|26265925|gb|CA816988.1|CA816988
EST:     TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG                         ACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
genomic: TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttct ... tcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
EST: gi|110382727|gb|EC947047.1|EC947047
EST:     TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG                         ACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
genomic: TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttct ... tcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
EST: gi|110382466|gb|EC946757.1|EC946757
EST:     TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG                         ACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
genomic: TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttct ... tcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
EST: gi|28959221|gb|CB339611.1|CB339611
EST:     TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG                         ACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
genomic: TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttct ... tcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
EST: gi|33409086|gb|CF214713.1|CF214713
EST:     TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG                         ACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
genomic: TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttct ... tcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
EST: gi|26263944|gb|CA815007.1|CA815007
EST:     TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAG                         ACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG
genomic: TAAAGGGGGAGTTCATAGGGGGATCTGATATTATTCTCAACATGCACCAGgttaatttct ... tcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgttttcaatgcagtaatatattgctctaacactgtggtctgtcctgtgtagACTGGTGAACTGAAGGAAAAGCTCAAAGACGTCTCGGCACCCCAGGAAAAGTCCGAATGAGTTACTGTTGTTAGATACTGATTAATGAGATTGTTAAATT
                           ctctaac  putative branch site (score: 2)
                                         tctgtcct  putative PPT
               agtaatatatt  TA-rich tract