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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatatgcttacctatgccttaatatattctagatgtttactcattttttattattttccagcctaacattgagttgattttgaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTATTCAGTTCGTTGATGGTTTCTTCAGTCCATTATATGAACGGCTTGGCATC

Basic information

species Vitis vinifera
transcript Vv07s0031g02010.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0031g02010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g64780.4 (Oryza sativa), 3'ss of exon 2
gtaatatgcttacctatgccttaatatattctagatgt-ttact---cattttttattattttccagcctaacattgagttgattttgaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTATTCAGTTCGTTGATGGTTTCTTCAGTCCATTATATGAACGGCTTGGCATC
       |   | || || |   |   |   ||    | ||||    ||     ||  |  |       |    ||       ||||    |||||| || ||||| ||||| ||||| || || || ||  | ||||||||||||||||| || |||||||| || ||||| ||| |||||| |   ||||| |||
-------gtacatctttgacaggaaccaagttaagcatgttaccaaacaaaaagtaaaaaatcatgcattgttcttcttccctttttttttttgcagCGTCGTTCTGTTTCCTGTTGCTGTCACGTTCTTCATCACATGGTGGTTTATTCAATTTGTTGATGGCTTTTTCAGCCCACTATATGCAAAACTTGGGATC

upper sequence: Vv07s0031g02010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G149662_T01 (Zea mays), 3'ss of exon 2
--gtaatatgcttacctat--gccttaatatatt-ctagatgtttactcattttttattattttccagcctaacattgagttgattttgaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTATTCAGTTCGTTGATGGTTTCTTCAGTCCATTATATGAACGGCTTGGCATC
    |   | |  |   ||    || ||  | || | | || | |    |  |||||||  |  |    |||    |   |   ||||     |||||||| || |||||||| |||||||| || || ||  | ||||||||||||||||| || |||||||| || ||||||||  |||||| |    |||| |||
gtacacccttcacaagaattgagctaaacctgttgccatatctatgtataccttttatttatgcctgatctatttct---tgtgttttatgtatgcagTGTAGTCCTTTTTCCTGTTGCAGTCACGTTCTTCATCACATGGTGGTTTATTCAATTTGTTGATGGGTTTTTCAGTCCCCTATATGCAAAAATTGGAATC

upper sequence: Vv07s0031g02010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G048150_T04 (Zea mays), 3'ss of exon 2
gtaatatgcttacctatgccttaat-atattctagatgtttactcattttttattattttccagcctaacattga--gttgattttgaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTATTCAGTTCGTTGATGGTTTCTTCAGTCCATTATATGAACGGCTTGGCATC
    |||||||  | | | |  | | | || ||      | |||    | |   |||  |     |     |||   |   | ||||    |||||||| |||||||| ||| |||| || ||||| ||  | || |||||||||||||| || ||||||||||| ||||| ||| | |||| |   || ||  | 
---gtatgcttcacaaggaccaattcagatactttgcagtgactacaatatatctatgctaatatcctgttttggctgcctactttgtctctgcagTGTAGTTCTTTTCCCAATTGCTGTCACATTCTTCCTCACGTGGTGGTTTATTCAATTTGTTGATGGTTTTTTCAGCCCACTCTATGCAAAACTGGGGTTT

upper sequence: Vv07s0031g02010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G046098_T02 (Zea mays), 3'ss of exon 2
----gtaatatgct-tacctatgccttaatatatt-ctagatgtttactcattttttattattttccagcctaacattgagttgattttgaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTATTCAGTTCGTTGATGGTTTCTTCAGTCCATTATATGAACGGCTTGGCATC
    |   |   |  || ||  || | || || || | | |  | ||   |  ||||||   |          | |||   |   ||||     |||||||| || ||||| || |||||||| || || ||  | ||||||||||||||||| || |||||||| || ||||||||  |||||| |   ||||| |||
gtacgcccttcacaataactgagc-taaacatgttgccatagctatatataccttttatgtatgcatgat---atatttcttgtgttttatgtctgcagTGTAGTCCTTTTCCCTGTTGCAGTCACGTTCTTCATCACATGGTGGTTTATTCAATTTGTTGATGGGTTTTTCAGTCCCCTATATGCAAAACTTGGAATC

upper sequence: Vv07s0031g02010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G046098_T04 (Zea mays), 3'ss of exon 2
----gtaatatgct-tacctatgccttaatatatt-ctagatgtttactcattttttattattttccagcctaacattgagttgattttgaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTATTCAGTTCGTTGATGGTTTCTTCAGTCCATTATATGAACGGCTTGGCATC-----
    |   |   |  || ||  || | || || || | | |  | ||   |  ||||||   |          | |||   |   ||||     |||||||| || ||||| || |||||||| || || ||  | ||||||||||||||||| || |||||||| || ||||||||  |||||| |   ||||| |||     
gtacgcccttcacaataactgagc-taaacatgttgccatagctatatataccttttatgtatgcatgat---atatttcttgtgttttatgtctgcagtgtagTCCTTTTCCCTGTTGCAGTCACGTTCTTCATCACATGGTGGTTTATTCAATTTGTTGATGGGTTTTTCAGTCCCCTATATGCAAAACTTGGAATCAACAT

upper sequence: Vv07s0031g02010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G052855_T01 (Zea mays), 3'ss of exon 2
------gtaatatgcttac--ctatgccttaatatattcta-gatgtttac--tcattttttatt-attttccagcctaacattgagttg--attttgaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTATTCAGTTCGTTGATGGTTTCTTCAGTCCATTATATGAACGGCTTGGCATC
       | | | | | ||    |    || | | | | |   |||  |||    |   | |||| ||  |     ||    |||  |    | |||    ||||||||| |||||||| ||| |||| || ||||| ||  | || ||||||||||| || || ||||||||||| ||||| ||| | |||| |   || ||  | 
gtatgcttcacaagttcacaatgactaattcagacactttgcaatggctacaactacaatatattgatgctaatatcttcttttgtctccctactttttctttgcagTGTAGTTCTTTTGCCAATTGCTGTCACATTCTTCATCACTTGGTGGTTTATCCAATTTGTTGATGGTTTTTTCAGCCCACTCTATGCAAAACTGGGGTTT

upper sequence: Vv07s0031g02010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G15360.2 (Glycine max), 3'ss of exon 2
gtaatatgcttacctatgccttaatatattctagatgtttactcattttttattattttccagcctaacattgagttgattttgaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTATTCAGTTCGTTGATGGTTTCTTCAGTCCATTATATGAACGGCTTGGCATC
|||||   |  | |||   |||| |       ||||| ||| |  ||| | || ||| |          ||| | ||  |||||||  ||||| || ||||||||||||||||| ||||| || ||  |||||||||||||||||||||| |||||||||||||| |||||| ||||     |||| ||||| 
gtaatggacaaaacta---cttattg------agatgattaat--tttatcatcattgttggtgtgcttattcatttagttttgaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTATTCAGTTTGTTGATGGTTTCTTTAGTCCAATATACTCCAGGCTCGGCATA

upper sequence: Vv07s0031g02010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G39490.1 (Glycine max), 3'ss of exon 2
gtaatatgcttacctatgccttaatatattctagatgtttactcattttttattattttccagcctaacattgagttgattttgaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTATTCAGTTCGTTGATGGTTTCTTCAGTCCATTATATGAACGGCTTGGCATC
|||||   |  | |||    || | ||  | || || ||||     |  | ||| ||     || ||   || | ||  |||||||  ||||| || ||||||||||||||||| ||||| || ||  |||||||||||||||||||||| |||||||||||||| |||||| ||||     |||| || || 
gtaatgaacaaaactacttattgagatgat-taaat-ttta-----tcatcattgttggtgtgctta---ttcatttagttttgaatctgcagCGTAGTTCTTTTTCCAGTTGCTGTTACCTTCTTCATTACATGGTGGTTTATTCAGTTTGTTGATGGTTTCTTTAGTCCAATATACTCCAGGCTCGGGATA

upper sequence: Vv07s0031g02010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G43130.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaatatgcttacctatgccttaatatattctagatgtt--tactcattttttattattttccagcc--taacattgagttgattttgaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTATTCAGTTCGTTGATGGTTTCTTCAGTCCATTATATGAACGGCTTGGCATC
          ||  ||   | ||  |   | |  || ||  |||||||  |||   || ||     |  |    |  | |||  | |    | | ||||| || || ||||| || || ||||||||  |  | || ||||||||||| ||||||||||||||||||||||||||  |||| ||    |||||  | 
---------gtaaataactcgtagcaccctttttattttcatactcatgatttgaaatctttgtatcattggggtctaattgggtgttgtgtggtagTGTCGTACTCTTTCCTGTAGCTGTTACATTCCTCATCACTTGGTGGTTTATCCAGTTCGTTGATGGTTTCTTCAGTCCGATATACGAGAACCTTGGTGTT

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|110712883|gb|EE088318.1|EE088318
EST:     TGCTGTTATTTTCTCCAGAGCTGGGTCTCAAAGAAGTTCATGACTGGATG                         TGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTCACATGGTGGTTTAT
genomic: TGCTGTTATTTTCTCCAGAGCTGGGTCTCAAAGAAGTTCATGACTGGATGgtaatatgct ... gaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTAT
EST: gi|110700237|gb|EE078049.1|EE078049
EST:     TGCTGTTATTTTCTCCAGAGCTGGGTCTCAAAGAAGTTCATGACTGGATG                         TGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTAT
genomic: TGCTGTTATTTTCTCCAGAGCTGGGTCTCAAAGAAGTTCATGACTGGATGgtaatatgct ... gaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTAT
EST: gi|161713089|gb|FC062465.1|FC062465
EST:     TGCTGTTATTTTCTCCAGAGCTGGGTCTCAAAGAAGTTCATGACTGGATG                         TGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTAT
genomic: TGCTGTTATTTTCTCCAGAGCTGGGTCTCAAAGAAGTTCATGACTGGATGgtaatatgct ... gaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTAT
EST: gi|37190081|gb|CF609430.1|CF609430
EST:     TGCTGTTATTTTCTCCAGAGCTGGGTCTCAAAGAAGTTCATGACTGGATG                         TGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTAT
genomic: TGCTGTTATTTTCTCCAGAGCTGGGTCTCAAAGAAGTTCATGACTGGATGgtaatatgct ... gaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTAT
EST: gi|110702437|gb|EE081153.1|EE081153
EST:     TGCTGTTATTTTCTCCAGAGCTGGGTCTCAAAGAAGTTCATGACTGGATG                         TGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTAT
genomic: TGCTGTTATTTTCTCCAGAGCTGGGTCTCAAAGAAGTTCATGACTGGATGgtaatatgct ... gaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttactcattttttattattttccagcctaacattgagttgattttgaaattgcagTGTTGTTCTTTTTCCAGTTGCAGTTACATTTTTTGTTACATGGTGGTTTATTCAGTTCGTTGATGGTTTCTTCAGTCCATTATATGAACGGCTTGGCATC
      attttttattattttc  TA-rich tract