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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgattgtctgtctactgcctattgatgataaaactctttctcatacctattttaactgatagaaatttctgtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTACCCTTACAAGGGCCAAATTTGAGGAATTATGTTCTGACTTACTTGATAG

Basic information

species Vitis vinifera
transcript Vv17s0000g03310.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g03310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g14070.1 (Oryza sativa), 3'ss of exon 4
gtatgttgattgtctgtc-tactgcctattgatgataaaactctttc--tcatacctatt-ttaactgatagaaatttctgtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTACCCTTACAAGGGCCAAATTTGAGGAATTATGTTCTGACTTACTTGATAG
||  | |  ||  |  |  | ||  |     ||  ||   ||| ||   | ||   | || |||| | || |||  |  ||  || | |||||||| ||||| ||||| ||||| ||||| || |||||||||||||| || ||  | || ||||||||||||||  ||||||| ||| |  |||||||
gtgagcttctttccaattgttctcacagagtattctattgctcatttggtgatttttcttcttaaataattgaatgtcttgaattgc-agCTTGCCTTTCATAACTGCTACTGCTGATGGGCCTAAACACATCGAGACAACTCTCTCCAGAGCCAAATTTGAGGAGCTATGTTCGGACCTCATTGATAG

upper sequence: Vv17s0000g03310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G001500_T02 (Zea mays), 3'ss of exon 4
-----gtatgttgattgtctgtctactgcctattgat---gataaaactct-ttctcatacctattttaactgatagaaatttctgtttt--------------tccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTACCCTTACAAGGGCCAAATTTGAGGAATTATGTTCTGACTTACTTGATAG
      ||  || | ||| | |   | |  | |  |     | ||   |||  |||  |    || |  | |  |  ||||| ||  |||              | |||| | || ||||||||||| ||||| ||||| || |||||||||||| | |||||  | || |||||||| |||||| ||||||| ||| |  | || ||
gtaggctacttttagtgtatttacgcagtgtttaaacttgaacaatgttctgctctgctgttgatctacattatttcaaattgcttatttctgaatacattaaattcagCCTACCATTCATTACTGCTACTGCTGATGGGCCAAAACACATCGAGGCAACCCTCTCGAGAGCCAAATTCGAGGAACTATGTTCAGACCTTATAGACAG

upper sequence: Vv17s0000g03310.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G00410.1 (Glycine max), 3'ss of exon 3
-------gtatgttgattgtctgtctactgcctattgatgataaaactctttctcatacctatttta--actgatagaaatttc-tgtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTACCCTTACAAGGGCCAAATTTGAGGAATTATGTTCTGACTTACTTGATAG
        ||  ||  |  ||  ||   | ||| ||| |  |  |      |||  |  | |    |    ||| |  |||  | | | ||| ||| ||||| ||||| |||||||| || |||||||||||||| || ||||| ||| | |||||||| |||||||||||||| ||||| ||  | ||||| ||
gtattatttacttttctcctcaatcctat-cctgttgctttttcattgtgctcttgttaccaaaccactgttgacattaatgccatatgttttcagTTTGCCATTCATAACTGCCACGGCTGATGGACCCAAACATATTGAGACCACCATCACAAGGGCTAAATTTGAGGAATTGTGTTCAGATCTTCTTGACAG

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|34543152|gb|CF511384.1|CF511384
EST:     GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAG                         CTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
genomic: GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAGgtatgttgat ... gtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
EST: gi|110399195|gb|EC965690.1|EC965690
EST:     GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAG                         CTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
genomic: GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAGgtatgttgat ... gtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
EST: gi|110689187|gb|EE065194.1|EE065194
EST:     GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAG                         CTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
genomic: GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAGgtatgttgat ... gtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
EST: gi|110360709|gb|EC924030.1|EC924030
EST:     GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAG                         CTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
genomic: GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAGgtatgttgat ... gtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
EST: gi|26263790|gb|CA814853.1|CA814853
EST:     GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTGG                         CTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
genomic: GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAGgtatgttgat ... gtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
EST: gi|110376029|gb|EC941068.1|EC941068
EST:     GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAG                         CTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
genomic: GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAGgtatgttgat ... gtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
EST: gi|56408917|gb|CX017169.1|CX017169
EST:     GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAG                         CTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
genomic: GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAGgtatgttgat ... gtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
EST: gi|161717811|gb|FC065964.1|FC065964
EST:     GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAG                         CTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
genomic: GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAGgtatgttgat ... gtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
EST: gi|110376831|gb|EC941910.1|EC941910
EST:     GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAG                         CTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
genomic: GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAGgtatgttgat ... gtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
EST: gi|110374207|gb|EC938830.1|EC938830
EST:     GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAG                         CTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
genomic: GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAGgtatgttgat ... gtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
EST: gi|294964596|gb|GW838399.1|GW838399
EST:     GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAG                         CTTGCCGTTCATTACTGGCACTGCAGATGGACC-AAAC-CATCGAGAC
genomic: GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAGgtatgttgat ... gtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGAC
EST: gi|161717131|gb|FC065919.1|FC065919
EST:     GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAG                         CTTGCCGTTCATTACTGCCACTGCAGATGGACCCCAACACATCGAGACTA
genomic: GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAGgtatgttgat ... gtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTA
EST: gi|351024502|gb|FQ426311.1|FQ426311
EST:     GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAG                         CTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC
genomic: GCTGAGAAGGCAAAAATGGAGCTATCATCCTTGACACAGACAAATATTAGgtatgttgat ... gtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgataaaactctttctcatacctattttaactgatagaaatttctgtttttccagCTTGCCGTTCATTACTGCCACTGCAGATGGACCCAAACACATCGAGACTACCCTTACAAGGGCCAAATTTGAGGAATTATGTTCTGACTTACTTGATAG
                                        tttctgtttttcc  CT-rich tract
                      tattttaactgataga  TA-rich tract