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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagttatccaggtcaactgagatattaatcctggatattctggtttttggttcaatttatttcgctctgttgtaattaatcattaagtttaatttactttattattctaaatgtaataacagttcaattctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTTGGTGACATTGTAATCCCTG

Basic information

species Vitis vinifera
transcript Vv06s0009g03520.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G044348_T04 (Zea mays), 3'ss of exon 8
gtcagttatccaggtcaactgagatattaatcctggatattctggtttttggttcaatt-tatttcgctctgttgtaattaatcattaagtttaatttactttattattctaaatgtaataacagttcaatt--ctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTTGGTGACATTGTAATCCCTG------------------------------
                                            ||   ||| ||  |  || |   ||  ||  |  ||||| |  |  || | ||   |  || || ||  |  | ||  |  ||   ||   | | | |||||| |||| ||||| || ||  |||  |||||||| ||||||||||| ||||||||||||||||| ||||                              
--------------------------------------------gtcggtggctctttcctactgaacttggtctttgttaat-accattttcagttagttccat-atgcttcagctgatctcgctttgcttggttatgtacagCTTCTGTTTCCAACTGCAGACGCTGAACGGCCATTCTCCATGCTTGGCCTTGGTGACATTGTAATACCTGGTTAGTAATGAAAATTTCTTTCCTAGTGCT

upper sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G044348_T03 (Zea mays), 3'ss of exon 7
gtcagttatccaggtcaactgagatattaatcctggatattctggtttttggttcaatt-tatttcgctctgttgtaattaatcattaagtttaatttactttattattctaaatgtaataacagttcaatt--ctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTTGGTGACATTGTAATCCCTG
                                            ||   ||| ||  |  || |   ||  ||  |  ||||| |  |  || | ||   |  || || ||  |  | ||  |  ||   ||   | | | |||||| |||| ||||| || ||  |||  |||||||| ||||||||||| ||||||||||||||||| ||||
--------------------------------------------gtcggtggctctttcctactgaacttggtctttgttaat-accattttcagttagttccat-atgcttcagctgatctcgctttgcttggttatgtacagCTTCTGTTTCCAACTGCAGACGCTGAACGGCCATTCTCCATGCTTGGCCTTGGTGACATTGTAATACCTG

upper sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G150251_T01 (Zea mays), 3'ss of exon 8
gtcagttatccaggtcaactgagatattaatcctggatattctggtttttggttcaatttatttcgctctgttgtaattaatcattaagtttaatttactttattattctaaatgtaataacagttcaattctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTTGGTGACATTGTAATCCCTG
             |||| |  |    || || ||| |  || |  | ||     || | |   || ||| |||  | ||  |       |||   | |  ||  |  |  |  ||   |  |  |       | | | |||||| |||| || || || |||  ||| |||||||| ||||||||||| ||||||||||||||||| ||||
-------------gtcagc--actctttcatactgaacctttttttgttaataccattgtcagtcactcagtt--agttggttcc---atttttctcatcttgatgcttcagctgatctggctttgtttggttatgtacagCTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTTGGTGACATTGTAATACCTG

upper sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G21190.1 (Glycine max), 3'ss of exon 3
gtcagttatccaggtcaactgagatattaatcctggatattctggtttttggttcaatttatttcgctctgttgtaattaatcattaagtttaatttactttatta-ttctaaatgtaataacagttcaattctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTTGGTGACATTGTAATCCCTG
                                      || |       |  |  ||   | |    | ||    |||  |      | | ||   |||   |||  |||   || |  |||   ||  |||  ||| ||||||||||||||| || || ||||||||  |||||||||| ||||||||||||||||||||||| |||||||
------------------------------------tcatccaaacagatattaaaagacagtagtttttg----aatggagggaggaatataccctacacaatttcttcctgattt--taattatttcatttgtttggcagCTTTTGTTCCCCACCGCAGATTCTGCAAGGCCATTTTCAATGCTTGGACTTGGTGACATTGTTATCCCTG

upper sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G08510.1 (Glycine max), 3'ss of exon 8
gtcagttatccaggtcaactgagatattaatc-ctggatattctggtttttggttcaatttatttcgctctgttgtaattaatcattaagtttaatttactttattattctaaatgtaataacagttcaattctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTTGGTGACATTGTAATCCCTG
|| |||| |   | | |  ||| ||    ||  |||  | |  | || |    || ||||   | |   || |  ||    || |  || | ||||  |  |    ||||  ||| |  | |   ||||| |  ||||||||||||||||||| ||||| ||||| ||  |||||||||| |||||||| |||||||| ||||| |||||||
gttagtttttttgctaa--tgaaatggagatttctgtttgtctttgtgtgaattttaattgtgtacttactatgatatcagataaaaaaatgtaataaatct----attcctaatattgtca---ttcaaattattttgcagCTTTTGTTCCCCACAGCAGATTCAGCAAGGCCATTTTCAATGCTTGGCCTTGGTGATATTGTTATCCCTG

upper sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G08620.3 (Glycine max), 3'ss of exon 8
gtcagttatccaggtcaactgagatattaatcctggatattctggtttttggttcaatttatttcgctctgttgtaattaatcattaagtttaatttactttat-tattctaaatgtaataacagttcaattctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTTGGTGACATTGTAATCCCTG
|| |  | |   | | |  ||| ||    ||    | |  |||   | |   ||  | || | |   | |  | | || |     ||||   ||| || |  || |||||  ||| |  | |   ||||| |  ||||||||||||| ||||| ||||| ||||| ||  |||||||||| |||||||| |||||||| ||||| |||||||
gttaagttttttgctaa--tgaaatggagatttctgtttgtctttgtgtgaattttaattgtata--tttactatgat-atcagataagaaaaatgtaataaatctattcctaatattgtca---ttcaaattattttgcagCTTTTATTCCCCACAGCAGATTCAGCAAGGCCATTTTCAATGCTTGGCCTTGGTGATATTGTTATCCCTG

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|71877015|gb|DT026070.1|DT026070
EST:     TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAG                         CTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
genomic: TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAGgtcagttatc ... ctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
EST: gi|27579299|gb|CB001994.1|CB001994
EST:     TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAG                         CTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
genomic: TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAGgtcagttatc ... ctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
EST: gi|110391760|gb|EC956760.1|EC956760
EST:     TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAG                         CTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
genomic: TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAGgtcagttatc ... ctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
EST: gi|34364249|gb|CF405834.1|CF405834
EST:     GTGATGGTCAGTGTTGC-AAGTCCTTTGATGCTCCTATTAAG                         CTTTTGTTCCCAACAGCTGATTCTGCCCGGNCATTTTCCATGCTTGGACTT
genomic: GTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAGgtcagttatc ... ctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
EST: gi|110361505|gb|EC924984.1|EC924984
EST:     TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAG                         CTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
genomic: TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAGgtcagttatc ... ctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
EST: gi|77579348|gb|DV218502.1|DV218502
EST:     TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAG                         CTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
genomic: TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAGgtcagttatc ... ctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
EST: gi|161717568|gb|FC066896.1|FC066896
EST:     TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAG                         CTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
genomic: TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAGgtcagttatc ... ctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
EST: gi|110376904|gb|EC941978.1|EC941978
EST:     ACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTTGATGCTCCTATTAAG                         CTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
genomic: ACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAGgtcagttatc ... ctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
EST: gi|110730433|gb|EE107509.1|EE107509
EST:     TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAG                         CTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
genomic: TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAGgtcagttatc ... ctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
EST: gi|71874644|gb|DT023699.1|DT023699
EST:     TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAG                         CTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT
genomic: TCACTCCAGTGATGGTCAGTGTTGCAAAGTCCTTCGATGCTCCTATTAAGgtcagttatc ... ctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtttaatttactttattattctaaatgtaataacagttcaattctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTTGGTGACATTGTAATCCCTG
                             taataac  putative branch site (score: 1)
                                           ttctttttgc  putative PPT
     taatttactttattat  TA-rich tract