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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgcctttttcccttcattttccttcggtttctagttccaaatcatgtttgcgaagctgggtttgaggcgattgcgttgaatcgaaataggtattttttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCCTCCTTATGGCACATGCACGAG

Basic information

species Vitis vinifera
transcript Vv16s0050g01090.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0050g01090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G163683_T01 (Zea mays), 3'ss of exon 2
gtaagtgcctttttcccttcattttccttcggtttctagttccaaatcatgtttgcgaagctgggtttgaggcgattgcgttgaatcgaaataggtattttttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCCTCCTTATGGCACATGCACGAG----------------------------
||| | | |  |  |    ||  |    ||  | || |  |     || | ||   || || |    || |  || | |  ||           |  |   |      ||||| || ||||||||||||||| | ||||| |||   || || |||||||||||| | |||||||||||||||                            
gtacgcggcggtc-cttggcagctcagctctatctccaactttttttcct-ttcctgacgc-gaaactgggctgacttccctgggc--------gcgtccgtg-----cagGTCGGGATGGAGTTCTGGGCGCGGTGGGCGCACCGGGCGCTATGGCACGCCTCCCTGTGGCACATGCACGAGTCGCACCACCGGTCGTGCGAGGGCCCAT

upper sequence: Vv16s0050g01090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G152135_T06 (Zea mays), 3'ss of exon 2
gtaagtgcctttttcccttcattttccttcggtttctagttccaaatcatgtttgcgaagctgggtttgaggcgattgcgttgaatcgaaataggtattttttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCCTCCTTATGGCACATGCACGAG----------------------------
                   |      | |||   ||   |||  |  |   |    | || | | || | | |   ||  ||   | |      |  |          ||||| || ||||||||||||||| | ||||| |||   || || |||||||||||| | |||||||||||||||                            
--------------gtacgcggcgctcctcgacgtccttttctgacgcgcatgcaagcagatcgattggggcctgctgatttcgctggtcgcgtgcgtg---------cagGTCGGGATGGAGTTCTGGGCGCGGTGGGCGCACCGGGCGCTGTGGCACGCCTCCCTGTGGCACATGCACGAGTCGCACCACCGGCCGCGCGAGGGCCCCT

upper sequence: Vv16s0050g01090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G164318_T01 (Zea mays), 3'ss of exon 2
------gtaagtgcctttttcccttcattttccttcggtttctagttccaaatcatgtttgcg---aagctgggtttgaggcgattgcgttgaatcgaaataggtattttttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCCTCCTTATGGCACATGCACGAG----------------------------
      |    |||  |  ||      | |  || |    | |  ||||      |  |  ||   |||  |    || |  |||| |  ||           |  | |        ||||| || ||||||||||||||| | ||||| |||   || || |||||||||||| | |||||||||||||||                            
gtacgcggcgctgcgctcctcggcagctctagctccaacctttttttcccccctttcctgacgcgaaaggcgaaactgggctgatttccctgggcgcgtccgtgcgtgt---gcgtgcagGTCGGGATGGAGTTCTGGGCGCGGTGGGCGCACCGGGCGCTGTGGCACGCCTCCCTGTGGCACATGCACGAGTCGCACCACCGGCCGCGCGAGGGCCCAT

upper sequence: Vv16s0050g01090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G163683_T02 (Zea mays), 3'ss of exon 2
gtaagtgcctttttcccttcattttccttcggtttctagttccaaatcatgtttgcgaagctgggtttgaggcgattgcgttgaatcgaaataggtattttttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCCTCCTTATGGCACATGCACGAG----------------------------
                            || | | |||  ||||| |  | ||| |    |  |    ||  |   || | ||| |     | ||    |        ||||| || ||||||||||||||| | ||||| |||   || || |||||||||||| | |||||||||||||||                            
--------------------------gctcagct-ctatctccaact--ttttttcctttcctgacgcgaaac---tgggctgacttccc-tgggcgcgtccg---tgcagGTCGGGATGGAGTTCTGGGCGCGGTGGGCGCACCGGGCGCTATGGCACGCCTCCCTGTGGCACATGCACGAGTCGCACCACCGGTCGTGCGAGGGCCCAT

upper sequence: Vv16s0050g01090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G37560.2 (Glycine max), 3'ss of exon 2
gtaagtgcctttttcccttcattttccttcggtttctagttccaaatcatgtttgcgaagctgggtttgaggcgattgcgttgaatcgaaataggtattttttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCCTCCTTATGGCACATGCACGAG
|||||| ||| |   |||  || |          | || |   ||||   || |   ||      | || | |       ||||||  || | ||||| | | ||| |||||| |  ||||| || ||||| ||||||||||| | |||||| ||||| || ||||| |||||||||||||||
gtaagt-cctatactcctatatcta---------tttattatgaaattgggtatat-aattcaattctgcgtc-------ttgaattcaattgggtatgtctaattttcagGTGGCTATGGAATTTTGGGCAAGATGGGCTCATAGAGCTCTTTGGCATGCTTCCTTGTGGCACATGCACGAG

upper sequence: Vv16s0050g01090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G30230.2 (Glycine max), 3'ss of exon 2
gtaagtgcctttttcccttcattttccttcggtttctagttccaaatcatgtttgcgaagctgggtttg--aggcgatt----gcgttgaatcgaaataggtattttttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCCTCCTTATGGCACATGCACGAG
                                     ||| | | ||| |  ||  |||  |||||||   |  | |||    | |||||||  || | || || | | ||| |||||| |  |||||  | ||||| ||||||||||| | |||||| ||||| || ||||| |||||||||||||||
----------------------------------gtaagtcctatatctttattatgaaattgggtttattattcaattctgggtgttgaattcaattgggcatgtctaattttcagGTGGCTATGGAACTTTGGGCAAGATGGGCTCATAGAGCTCTTTGGCATGCTTCCTTGTGGCACATGCACGAG

upper sequence: Vv16s0050g01090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G24530.1 (Glycine max), 3'ss of exon 2
----gtaagtgcctttttccct-----tcattttccttcggtttctagtt-----ccaaatcatgtttgcg-aagctgggtttgaggcgattgcgttgaatcgaaataggtattttttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCCTCCTTATGGCACATGCACGAG
    ||||    | ||||   |     | |||    ||| ||||  | ||       || |||   ||| |  || |   | |||       | | |  ||  || | ||||| | | ||| |||||| || |||||||| ||||| |||||||||||||  ||||| ||||| || ||| | ||||||||||| |||
gtgagtaatcatccttttaattgattatgattccaattcagttttgaattgctttttaattcagaattgggtgagttctttgtgaattttgggtggtagattcaattgggtatgtctgattttcagGTGGGTATGGAGTTTTGGGCTAGATGGGCTCACAGGGCTCTATGGCATGCTTCCCTGTGGCACATGCATGAG

upper sequence: Vv16s0050g01090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G25700.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagtgcctttttcccttcattttccttcggtttctagttccaaatcatgtttgcgaagctgggtttgaggcgattgcgttgaatcgaaataggtattttttatt-ctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCCTCCTTATGGCACATGCACGAG
                            |  ||||| |      |  |   |||      |||  |   |  | |    |||     || ||     ||||  |||  |||||| || ||||| |||||||| ||||||||||| | |||||| |||||||| ||  ||||| | ||||| |||
---------------------------gtaagtttcaaaacttcatcccaattttt----ctgattcataaacaaaaaagtttggctgagat-----ttttggattattcagGTTGGTATGGAATTCTGGGCAAGATGGGCTCATAGAGCTCTGTGGCACGCTTCTCTATGGAATATGCATGAG

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|110362018|gb|EC925524.1|EC925524
EST:     TTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCAGTTGGAGCCGCT                         GTGGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCC
genomic: TTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTTGGAGCCGCTgtaagtgcct ... ttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCC
EST: gi|110387779|gb|EC952475.1|EC952475
EST:     TTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCAGTTGGAGCCGCT                         GTGGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCC
genomic: TTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTTGGAGCCGCTgtaagtgcct ... ttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCC
EST: gi|34549741|gb|CF517973.1|CF517973
EST:     TTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTTGGAGCCGCT                         GTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCC
genomic: TTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTTGGAGCCGCTgtaagtgcct ... ttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCC
EST: gi|34544824|gb|CF513056.1|CF513056
EST:     TTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTTGGAGCCGCT                         GTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCC
genomic: TTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTTGGAGCCGCTgtaagtgcct ... ttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCC
EST: gi|110422537|gb|EC988863.1|EC988863
EST:     TTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTTGGAGCCGCT                         GTGGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCC
genomic: TTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTTGGAGCCGCTgtaagtgcct ... ttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCC
EST: gi|110388927|gb|EC953729.1|EC953729
EST:     TTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCAGTTGGAGCCGCT                         GTGGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCC
genomic: TTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTTGGAGCCGCTgtaagtgcct ... ttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCC
EST: gi|110362556|gb|EC926099.1|EC926099
EST:     TTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCAGTTGGAGCCGCT                         GTGGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCC
genomic: TTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTTGGAGCCGCTgtaagtgcct ... ttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaagctgggtttgaggcgattgcgttgaatcgaaataggtattttttattctcagGTAGGCATGGAGTTCTGGGCGAGATGGGCTCACAAAGCTCTCTGGCACGCCTCCTTATGGCACATGCACGAG
                                       tattttttattctc  CT-rich tract
                                aaataggtatttttta  TA-rich tract