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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcacactgatcaacatacattccatccctcttcattttgttcatgttctatatattgatggttttaatcaattctaatctccttagttgatcttgttatttggctgcagGATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCGCAACATTAACATATATTCCCAGTTTACAATGTAAAGTTCTAACTTTTTT

Basic information

species Vitis vinifera
transcript Vv06s0004g03940.t01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA11G15480.1 (Glycine max), 3'ss of exon 13
gttcacactgatcaacatacattccatccctcttcattttgttcatgttctatatattgatggttttaatcaattctaatctccttagttgatcttgtt--atttggctgcagGATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCGCAACATTAACATATATTCCCAG---TTTACAATGTAAAGTTCTAACTTTTTT
|||     |  | || ||||         || |  ||  ||||  ||  || |   |          ||| |||  |  | |  ||||    |  |||   |  |   ||||||||||||||||||| ||||||||  |||||||||||| ||||| ||| || |||| || |     |  |  |    |||  | |||||||||   | | |   
gttagtttttgtgaatatac--------tctgtcgatgatgttagtgaactctgcctcctattccccaattaatattc-tttttttagcctctaatgtagaacctccttgcagGATAATTTTGTTCTACATTATGAAATGTTGGAAAAGAGACCACATCTGCCTCAACTTTGAGGAGGAAACAAAAACCTTTTTACTGTAAAGTTTCGATTAT---

upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA12G07970.2 (Glycine max), 3'ss of exon 11
gttcacactgatcaacatacattccatccctcttcattttgttcatgttctatatattgatggttttaatcaattctaatctccttagttgatcttgttatttggctgcagGATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCGCAACATTAACATATATTCCCAGTTTACAATGTAAAGTTCTAACTTTTTT
|||  |  |  | || ||||  ||  ||  |  |  || ||  | | | ||   |||| ||  | ||  |   || ||  |||    || || | |  |       ||||||||||||||||||| ||||||||  |||||||||||| ||||| ||| || |||| || |                                        
gttagcttttttgaatatac--tctgtcgatggtgtttgtgaacttttcctcc-tattaatattgttc-tgttttttagcctctaatgtagaacctcct-------tgcagGATAATTTTGTTCTTCATTATGAAATGTTGGAAAAGAGACCACATCTGCCTCAACTTTGA----------------------------------------

upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA12G07970.1 (Glycine max), 3'ss of exon 13
gttcacactgatcaacatacattccatccctcttcattttgttcatgttctatatattgatggttttaatcaattctaatctccttagttgatcttgttatttggctgcagGATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCGCAACATTAACATATATTCCCAG--TTTACAATGTAAAGTTCTAACTTTTTT
|||  |  |  | || ||||  ||  ||  |  |  || ||  | | | ||   |||| ||  | ||  |   || ||  |||    || || | |  |       ||||||||||||||||||| ||||||||  |||||||||||| ||||| ||| || |||| || |     |  |  |    ||  | |||||||||  || | |   
gttagcttttttgaatatac--tctgtcgatggtgtttgtgaacttttcctcc-tattaatattgttc-tgttttttagcctctaatgtagaacctcct-------tgcagGATAATTTTGTTCTTCATTATGAAATGTTGGAAAAGAGACCACATCTGCCTCAACTTTGAGGAGGAAACAAAAACCTTTTATTGTAAAGTTTCAATTATG--

upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA13G40650.1 (Glycine max), 3'ss of exon 12
--------------gttcacactgatcaacatacattccatccctcttcattt----tgttcatgttctatatattgatggttttaat-caattctaatctccttagttgatcttgttatttggctgcagGATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCGCAACATTAACATAT--ATTCCCAGTTTACAATGTAAAGTTCTAACTTTTTT
               |  || |  ||  | ||| | | |||   |   ||  |      | | |  | ||||||||     ||||  | |   | |||| |    | |  | |        |   ||||||||||||||||||| ||||||||  || ||||||||| |||  || | || ||||||| |       |     |   |  ||||||||||| | | || |  
gtttgtttttgtttttgtactcacattcatatatactgcatgagtggacacatgcacgctccctaatttatatattatcatttttttttccgatataatttagg-actctaacggacagccttcttgcagGATAATTTTGTTCTTCATTATGAAGTGGTGGAAAAGAGACCTTCTGTGCCTCAACATTGAGGAGGGAAAAAGAAACCTTAAATGTAAAGTTTTTATTTAT--

upper sequence: Vv06s0004g03940.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA15G04780.1 (Glycine max), 3'ss of exon 14
----------gttcacactgatcaacatacattccatccctcttcattt-tgttcatgtt---ctatatattgatggttttaatcaattctaatctccttag--ttgatcttgttatttggctgcagGATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCGCAACATTAACATA---TATTCCCAGTTTACAATGTAAAGTTCTAACTTTTTT
          |||     |  |  ||  | | | |||   |   ||  |     ||        ||||||||     ||||  ||   | ||||    |  |  |  | |        |   ||||||||||||||||||| ||||||||  || ||||||||| |||  || | || ||||||| |   |    |     |   |  ||||||||||| | | ||    
gtttgtttttgtttttgtttttgtactcatactgcatgaatggacacatgcacgcaccccaagttatatattatcattttttttccgatataataatttaggcctctaacggacagccttcttgcagGATAATTTTGTTCTTCATTATGAAATGGTGGAAAAGAGACCGTCTGTGCCTCAACATTGAGGAAGGAAAAAGAAAACCTTAAATGTAAAGTTTTTATTTA---

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|110375098|gb|EC940056.1|EC940056
EST:     GAGGATCTTATCTTTGTTTTGACCCGAACACATGGGAGTCAGTCCGAAAG                         GATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCG
genomic: GAGGATCTTATCTTTGTTTTGACCCGAACACATGGGAGTCAGTCCGAAAGgttcacactg ... ttggctgcagGATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCG
EST: gi|34361715|gb|CF403300.1|CF403300
EST:     GAGGATCTTATCTTTGTTTTGACCCGAACACATGGGAGTCAGTCCGAAAG                         GATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCG
genomic: GAGGATCTTATCTTTGTTTTGACCCGAACACATGGGAGTCAGTCCGAAAGgttcacactg ... ttggctgcagGATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCG
EST: gi|110429086|gb|EC995574.1|EC995574
EST:     GAGGATCTTATCTTTGTTTTGACCCGAACACATGGGAGTCAGTCCGAAAG                         GATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCG
genomic: GAGGATCTTATCTTTGTTTTGACCCGAACACATGGGAGTCAGTCCGAAAGgttcacactg ... ttggctgcagGATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCG
EST: gi|110361031|gb|EC924481.1|EC924481
EST:     GAGGATCTTATCTTTGTTTTGACCCGAACACATGGGAGTCAGTCCGAAAG                         GATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCG
genomic: GAGGATCTTATCTTTGTTTTGACCCGAACACATGGGAGTCAGTCCGAAAGgttcacactg ... ttggctgcagGATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCG
EST: gi|110414858|gb|EC980718.1|EC980718
EST:     GAGGATCTTATCTTTGTTTTGACCCGAACACATGGGAGTCAGTCCGAAAG                         GATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCG
genomic: GAGGATCTTATCTTTGTTTTGACCCGAACACATGGGAGTCAGTCCGAAAGgttcacactg ... ttggctgcagGATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCG
EST: gi|110715851|gb|EE094372.1|EE094372
EST:     GAGGATCTTATCTTTGTTTTGACCCGAACACATGGGAGTCAGTCCGAAAG                         GATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCG
genomic: GAGGATCTTATCTTTGTTTTGACCCGAACACATGGGAGTCAGTCCGAAAGgttcacactg ... ttggctgcagGATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatggttttaatcaattctaatctccttagttgatcttgttatttggctgcagGATAATTTTGTTCTCCATTATGAGCTGTTGGAAAAGAAACCACCTCTACCGCAACATTAACATATATTCCCAGTTTACAATGTAAAGTTCTAACTTTTTT
       ttttaatcaattctaa  TA-rich tract