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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctatttccattcatttgattatctctgaagttccattgttgcaggagataatactttctgtacctcgttcttatttcccttttgagattatctcttgctatatttttggtcatcacaaatataaatatccttatcctgtgccttttcttctcttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGCACTACTTTTCCAGAATATGTTGTTGCTCTTGCTACCATTGTCGGATCTG

Basic information

species Vitis vinifera
transcript Vv08s0007g02270.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os06g03760.2 (Oryza sativa), 3'ss of exon 3
gttctatttccattcatttgattatctctgaagttccattgttgcaggagataatactttctgtacctcgttcttatttcccttttgagattatctcttgctatatttttggtcatcacaaatataaatatccttatcctgtgccttttcttctcttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGCACTACTTTTCCAGAATATGTTGTTGCTCTTGCTACCATTGTCGGATCTG
           | ||| |  || |  |      |||   ||      |  || ||  | | ||  || | | |        | |||||  |   | | |    |  |||||| |||   |  ||  | ||  ||     |  |  || |      ||| |||||||| | || ||  |||||  ||||   ||| | | ||| ||||| |||||| |||| || || |||||||| ||||||||||||||||| || |||||||
--------gttagtcaatcaatcaaattatgctttcttatgcctatagtaatgatgttatgtgctccccatccaatagcaacatttga--tcgacacct----ttcttttgg-cattttatctacgactaaact-gctttacggtttgt------tttattcagTGCGCAGCTTACACTGCACCTGCTAACTCTCAAACAACTTGGACAATGCGCGCTACCTTCCCTGAATATGTGGTTGCTCTTGCTACCATCGTTGGATCTG

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G43020.1 (Glycine max), 3'ss of exon 3
gttctatttccattcatttgattatctctgaagttccattgttgcaggagataatactttctgtacctcgttcttatttcccttttg---agattatctcttgctatatttttggtcatcacaaatataaatatccttatcctgtgccttttcttctcttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGCACTACTTTTCCAGAATATGTTGTTGCTCTTGCTACCATTGTCGGATCTG
                                                         |||||| || | ||| ||||||  || |||   || ||   | ||   | |  |    |  |  |   |    |||  | | |  |   |   || | |||      |||||||| ||||  ||||| ||| ||||||| |||||||||||||| ||||| ||||| |||||||||||||||||||| |||||||| ||||| |||||||
----------------------------------------------------gtctttttctgcac-tagttgttatttttctgttggctagttttgttgttttcagaggtaatatttttgctgttgctcatactccttttttccccacattgtcctcaaac--cagTGCTCAGCATTCTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTGTTGCACTTGCTACAATTGTTGGATCTG

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G18160.1 (Glycine max), 3'ss of exon 3
gttctatttccattcatttgattatctctgaagttccattgttgcaggagataatactttctgtacctcgttcttatttcccttttgagattatctcttgctatatttttggtcatcacaaatataaatatccttatcctgtgccttttcttctcttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGCACTACTTTTCCAGAATATGTTGTTGCTCTTGCTACCATTGTCGGATCTG
                                                         |||||| ||    || || |||  ||||||      | | ||| | |          ||      | |   |     |    | | ||     |   ||     ||||| || ||||  ||||| ||| ||||||| |||||||||||||| ||||| ||||| |||||||||||||||||||| |||||||| ||||| |||||||
----------------------------------------------------gtgtttttctgcactagttttttgtttttcttttggctagttttgttgttgtcagagataatatttttgctgttgctcattctccttttttcccccattgtcctcaaaccagTGTTCAGCATTCTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTGTTGCACTTGCTACTATTGTTGGATCTG

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G07890.1 (Glycine max), 3'ss of exon 3
gttctatttccattcatttgattatctctgaagttccattgttgcaggagataatactttctgtacctcgttcttatttcccttttgagattatctcttgctatatttttggtcatcacaaatataaatatccttatcctgtgccttttcttctcttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGCACTACTTTTCCAGAATATGTTGTTGCTCTTGCTACCATTGTCGGATCTG
  ||| |||   |   | |   | |||||     ||  |     ||  ||   ||| ||| | | ||    | || || | |||  ||  |  | | ||  ||| |||||| |  |    | | |   | |  ||  ||| || |         ||    |||||| |||||||   |||| ||| ||||||| |||||||||||||| ||||| ||||| |||||||||||||||||||||||||| || ||||| |||||||
-gtctgtttgtttctctctctctctctct----ctctctctcaccaacagtccatattttttttgcc--agttttgttgctctta-gaagtattttatttttatttttttgctgtttctcattctggtttttttttacctttgtc---------ctaaaatcagTGTTCTGCATTCACTGCCAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTGTTGCTCTTGCCACTATTGTTGGATCTG

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G19230.1 (Glycine max), 3'ss of exon 2
gttctatttccattcatttgattatctctgaagttccattgttgcaggagataatactttctgtacctcgttcttatttcccttttgagattatctcttgctatatttttggtcatcacaaatataaatatccttatcctgtgccttttcttctcttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGCACTACTTTTCCAGAATATGTT-GTTGCTCTTGCTACCATTGTCGGATCTG
                                                                                                   |  ||||||||| |  |  |  ||     | ||||| |      | || || ||        |||||||| ||||  ||||| ||| ||||||| |||||||||||||| ||||| ||||| ||||||||||||||| ||||| |||||||| ||||| |||||| 
---------------------------------------------------------------------------------------------------gtaatatttttgct-gttgctcat-----tctccttttttcccccattgtcctcaaac----cagTGCTCAGCATTCTCTGCTAGTCCTTCATCAGAGAAAACATGGACCATGCGTACTACCTTTCCAGAATATGTTTGTTGCACTTGCTACTATTGTTGGATCT-

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G30400.1 (Glycine max), 3'ss of exon 3
gttctatttccattcatttgattatctctgaagttccattgttgcaggagataatactttctgtacctcgttcttatttcccttttgagattatctcttgctatatttttggtcatcacaaatataaatatccttatcctgtgccttttcttctcttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGCACTACTTTTCCAGAATATGTTGTTGCTCTTGCTACCATTGTCGGATCTG
                | || || | |||     ||  |  |  ||  ||   ||| |||   ||   |  | || ||   |||   ||   || ||     || ||| || |  |||            | ||  |  | | |||||      ||  | |||||| |||||||   |||| ||| ||||||| || ||||||||||| ||||| ||||| ||||| |||||||| ||||||||||| || ||||| |||||||
---------------gtctgcttgtttct----ctcactcttaccaacagtccatatttt---tatgccagttttgttgttcttagaag--catttc-----atttttctgtttctca------------ttctggttttttacctttgtc---ctaatatcagTGTTCTGCATTCACTGCCAGTCCTTCATCAGAAAAAACATGGACCATGCGTACTACCTTTCCTGAATATGTCGTTGCTCTTGCCACTATTGTTGGATCTG

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G08930.1 (Arabidopsis thaliana), 3'ss of exon 3
gttctatttccattcatttgattatctctgaagttccattgttgcaggagataatactttctgtacctcgttcttatttcccttttgagattatctcttgctatatttttggtcatcacaaatataaatatccttatcctgtgccttttctt--ctcttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGCACTACTTTTCCAGAATATGTTGTTGCTCTTGCTACCATTGTCGGATCTG
                                              | |  |  | | |  || |  | |   |    |   ||||     ||| || ||    |||| ||  | |    | | | |  ||  ||| | | | ||| |   |  || |   | |||||||| |||| | | || | | |  ||||||||||||||||||||||||| |||||||||||||||||||||||||||||||| || ||||| || || |
----------------------------------------------gtatgtt-tgcctcttgaatgtagcattagcattagtttt-----tatatcatgagtcatttatg-ccgtagagagtttcagcat--ttaacatattcctgtctctggctatcaatgcagTGCTCAGCATTTACAGCTAATCCCACATCTGAGAAAACATGGACTATGCGTACTACTTTTCCAGAATATGTTGTTGCTCTTGCGACAATTGTTGGGTCAG

upper sequence: Vv08s0007g02270.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G01460.1 (Arabidopsis thaliana), 3'ss of exon 3
gttctatttccattcatttgattatctctgaagttccattgttgcaggagataatactttctgtacctcgttcttatttcccttttgagattatctcttgctatatttttggtcatcacaaatataaatatcctta-tcctgtgccttttcttctctttttt------cagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGCACTACTTTTCCAGAATATGTTGTTGCTCTTGCTACCATTGTCGGATCTG
                                                   |||||||||   |   |   |   |||    || |||| || ||| | | ||  | | |   ||  | | || | | |||    | |    |  ||| || |   | | ||      |||||||| |||||| | || | |||| | ||||| || |||||| | ||||| ||||| ||||||||||||||||||||||||||||| || || || || |
--------------------------------------------------gtaatactttaaat---tttcttgcattcttgttatgagtttttctttcgtta-gtctctatgcaaaatatatttcagtatgtaaaatatcttctcttctccttggtatattgatcggcagTGCTCAGCATATACAGCTAATGCTGCGTCTGAAAAGACATGGTCCATGCGTACTACGTTTCCAGAATATGTTGTTGCTCTTGCTACAATCGTTGGGTCAG

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|110730881|gb|EE108469.1|EE108469
EST:     CATGGGAATTGTCCAGTAGCCAACAATGTATTGGAAGTGGCACACACCAG                         TGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGC
genomic: CATGGGAATTGTCCAGTAGCCAACAATGTATTGGAAGTGGCACACACCAGgttctatttc ... cttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGC
EST: gi|110730406|gb|EE107450.1|EE107450
EST:     CATGGGAATTGTCCAGTAGCCAACAATGTATTGGAAGTGGCACACACCAG                         TGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGC
genomic: CATGGGAATTGTCCAGTAGCCAACAATGTATTGGAAGTGGCACACACCAGgttctatttc ... cttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGC
EST: gi|161716762|gb|FC065585.1|FC065585
EST:     CATGGGAATTGTCCAGTAGCCAACAATGTATTGGAAGTGGCACACACCAG                         TGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGC
genomic: CATGGGAATTGTCCAGTAGCCAACAATGTATTGGAAGTGGCACACACCAGgttctatttc ... cttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGC
EST: gi|110372187|gb|EC936337.1|EC936337
EST:     CATGGGAATTGTCCAGTAGCCAACAATGTATTGGAAGTGGCACACACCAG                         TGCTCTGCGTATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGC
genomic: CATGGGAATTGTCCAGTAGCCAACAATGTATTGGAAGTGGCACACACCAGgttctatttc ... cttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGC
EST: gi|110708808|gb|EE086769.1|EE086769
EST:     CATGGGAATTGTCCAGTAACCAACAATGTATTGGAAGTGGCACACACCAG                         TGCTCTGCGTATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGC
genomic: CATGGGAATTGTCCAGTAGCCAACAATGTATTGGAAGTGGCACACACCAGgttctatttc ... cttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtcatcacaaatataaatatccttatcctgtgccttttcttctcttttttcagTGCTCTGCATATTCTGCAAGTGCTTCATCTGAGAAAACATGGACTATGCGCACTACTTTTCCAGAATATGTTGTTGCTCTTGCTACCATTGTCGGATCTG
                   tatccttatcctgtgc  CT-rich tract
          aaatataaatatcctt  TA-rich tract