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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaaaccttattattaaaggtcttatatatttggtcttttgaaatgttccagtattcaatgggaatttttttcatgttgcagGAGAAGTGTCTCTAATCTTCTTCGGAGTGGTTTCCGTGAAAACCTGGACCGATTGATACAATCATATGTGGAAAGGCAAGTCCATGACCCTGTTGACTGG

Basic information

species Vitis vinifera
transcript Vv06s0061g00860.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0061g00860.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os09g39690.1 (Oryza sativa), 3'ss of exon 3
-gtatgaaaccttattattaaaggtcttatatatttggtcttttgaaatgttccagtattca-atgggaatttttttcatgttgcagGAGAAGTGTCTCTAATCTTCTTCGGAGTGGTTTCCGTGAAAACCTGGACCGATTGATACAATCATATGTGGAAAGGCAAGTCCATGACCCTGTTGACTGG
  | |   |  |  ||  | |||    | | |      | |||    |  |  |||  |  | |  | | |  | |||||  ||||| || ||||| |||||||||||||  |||| ||| ||||||||  |||||||| | || |  |||||||| ||||||||||  | ||  ||| |    |||
gtttttttatttctttcatgaagaaagtctctgcaacatatttctttagttctcagcgtaaatactgaattagtgttcattctgcagAAGGAGTGTTTCTAATCTTCTTCATAGTGCTTTTCGTGAAAATTTGGACCGACTTATCCGGTCATATGTTGAAAGGCAAGGTCGTGCTCCTCTCTCTTGG

upper sequence: Vv06s0061g00860.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G30330.1 (Glycine max), 3'ss of exon 6
gtatgaaaccttattattaaaggtcttatatatttggtcttttgaaatgttcca-gta---ttcaatgggaattt-ttttcatgttgcagGAGAAGTGTCTCTAATCTTCTTCGGAGTGGTTTCCGTGAAAACCTGGACCGATTGATACAATCATATGTGGAAAGGCAAGTCCATGACCCTGTTGACTGG
|||||      |   ||  |  || | |   | |   | || | |||||   || |||   |  |||    |||| ||||| | | |||||||||||||||| || || ||||| ||  |||| |||||||  || || | ||| |||||||||||||| ||||||||||  ||||  |  ||||| |||
gtatgttgatatga-atggagagtttcaacaaatctcttttgtaaaatgaaacaagtaaattagaataaatatttcttttcctttggcagGAGAAGTGTCTCAAACCTCCTTCGCAGCAGTTTTCGTGAAAGTCTTGATCAATTAATACAATCATATGTTGAAAGGCAAGGTCATGCTCACGTTGAATGG

upper sequence: Vv06s0061g00860.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G19750.1 (Glycine max), 3'ss of exon 5
gtatgaaaccttattattaaaggtcttatatatttggtcttttgaaatg----ttccagtattcaatgggaatttttttcatgttgcagGAGAAGTGTCTCTAATCTTCTTCGGAGTGGTTTCCGTGAAAACCTGGACCGATTGATACAATCATATGTGGAAAGGCAAGTCCATGACCCTGTTGACTGG
||| | ||   ||  | | |||   || |  | ||    || | | |||    ||  | | |  |||  |   | | ||||| ||||||||||||||||||||| || ||| | ||  |||||||||| |  || || |  |||||||| |||||||| ||||||||||  ||||      ||||||||
gtaagtaaa--tacaagtgaagagtttctgcagttatctttctaacatgaaaattgtaatctagaataagt-ctctattcatcttgcagGAGAAGTGTCTCTAACCTCCTTGGCAGCAGTTTCCGTGAGAGTCTTGATCAGTTGATACAGTCATATGTTGAAAGGCAAGGTCATGCTAACATTGACTGG

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|110732740|gb|EE108301.1|EE108301
EST:     CCCGATGATGATAATGTGTACAATATGGAACTCAGGGAACTCCTAAGCAG                         GAGAAGTGTCTCTAATCTTCTTCGGAGTGGTTTCCGTGAAAACCTGGACCG
genomic: CCCGATGATGATAATGTGTACAATATGGAACTCAGGGAACTCCTAAGCAGgtatgaaacc ... catgttgcagGAGAAGTGTCTCTAATCTTCTTCGGAGTGGTTTCCGTGAAAACCTGGACCG
EST: gi|37185066|gb|CF604419.1|CF604419
EST:     CCCGATGATGATAATGTGTACAATATGGAACTCAGGGAACTCCTAAGCAG                         GAGAAGTGTCTCTAATCTTCTTCGGAGTGGTTTCCGTGAAAACCTGGACCG
genomic: CCCGATGATGATAATGTGTACAATATGGAACTCAGGGAACTCCTAAGCAGgtatgaaacc ... catgttgcagGAGAAGTGTCTCTAATCTTCTTCGGAGTGGTTTCCGTGAAAACCTGGACCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttggtcttttgaaatgttccagtattcaatgggaatttttttcatgttgcagGAGAAGTGTCTCTAATCTTCTTCGGAGTGGTTTCCGTGAAAACCTGGACCGATTGATACAATCATATGTGGAAAGGCAAGTCCATGACCCTGTTGACTGG
                                      tttttttcat  CT-rich tract
                                    aatttttttcatgtt  TA-rich tract