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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttacatcacttcaattttttaaaactttatatcatcttagatgcaaccagggtaaaacatattttagcgtagcctgatctcatccttgggttgtcattattttgcagGAACTCTGTAAAGCCCATGGTCACTCCATTCAACAGAATTCCAGAAATCTGCTTCCTTCTCTAAAATCCTTGCAGAAGGCCATGGCCAGATTGCATCAGG

Basic information

species Vitis vinifera
transcript Vv09s0002g06030.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g06030.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G060817_T02 (Zea mays), 3'ss of exon 6
gtattttacatcacttcaattttttaaaactttatatcatcttagatgcaaccagggtaaaacatatttta-gcgtagcctgatctcatccttgggttgtcattattttgcagGAACTCTGTAAAGCCCATGGTCACTCCATTCAACAGAATTCCAGAAATCTGCTTCCTTCTCTAAAATCCTTGCAGAAGGCCATGGCCAGATTGCATCAGG
         ||||  |  |||||      |||   |  ||  ||     |    || | ||  |||   ||    ||      |||||| |||   || |  ||||  | ||||| || ||||| |  ||||| ||||  ||||||||||| ||||||| | ||||||||||||| ||||| ||||||||| | ||  | ||| | |||||||
-------gtatcatcttcattttcattttcttcccacgattataccgatagtttgg-tgaataataccatatatatatatcagtctcattctt---ttctttttatcatacagGAGCTATGTAAGGTTCATGGCCACTATATTCAACAGAACTCCAGAACTTTGCTTCCTTCTCTGAAATCATTGCAGAAGTCTATAACAAGACTACATCAGG
















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|351014814|gb|FQ438014.1|FQ438014
EST:     ATCTTCTAGAAAGCTGCCCCTACTTGGAATTTATCCTTCGATGGTGTCAG                         GAACTCTGTAAAGCCCATGGTCACTCCATTCAACAGAATTCCAGAAATCTG
genomic: ATCTTCTAGAAAGCTGCCCCTACTTGGAATTTATCCTTCGATGGTGTCAGgtattttaca ... tattttgcagGAACTCTGTAAAGCCCATGGTCACTCCATTCAACAGAATTCCAGAAATCTG
EST: gi|30329954|gb|CD013216.1|CD013216
EST:     ATCTTCTAGAAAGCTGCCCCTACTTGGAATTTATCCTTCGATGGTGTCAG                         GAACTCTGTAAAGCCCATGGTCACTCCATTCAACAGAATTCCAGAAATCTG
genomic: ATCTTCTAGAAAGCTGCCCCTACTTGGAATTTATCCTTCGATGGTGTCAGgtattttaca ... tattttgcagGAACTCTGTAAAGCCCATGGTCACTCCATTCAACAGAATTCCAGAAATCTG
EST: gi|30305845|gb|CB982639.1|CB982639
EST:     TCTTCTAGAAAGCTGCNCCTACTTGGAATTTTATCCTTCGATGGTGTCAG                         GAACTCTGTAAAGCCCATGGTCACTCCATTCAACAGAATTCCAGAAATCTG
genomic: TCTTCTAGAAAGCTGCCCCTACTTGGAA-TTTATCCTTCGATGGTGTCAGgtattttaca ... tattttgcagGAACTCTGTAAAGCCCATGGTCACTCCATTCAACAGAATTCCAGAAATCTG
EST: gi|351023721|gb|FQ448272.1|FQ448272
EST:     ATCTTCTAGAAAGCTGCCCCTACTTGGAATTTATCCTTCGATGGTGTCAG                         GAACTCTGTAAAGCCCATGGTCACTCCATTCAACAGAATTCCAGAAATCTG
genomic: ATCTTCTAGAAAGCTGCCCCTACTTGGAATTTATCCTTCGATGGTGTCAGgtattttaca ... tattttgcagGAACTCTGTAAAGCCCATGGTCACTCCATTCAACAGAATTCCAGAAATCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaacatattttagcgtagcctgatctcatccttgggttgtcattattttgcagGAACTCTGTAAAGCCCATGGTCACTCCATTCAACAGAATTCCAGAAATCTGCTTCCTTCTCTAAAATCCTTGCAGAAGGCCATGGCCAGATTGCATCAGG
                   gcctgat  putative branch site (score: 4)
                                            ttatttt  putative PPT
                                         tcattatttt  TA-rich tract