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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttctggtgaaacaagctctgagcaatggatgcatattattctagtttcagattgagaatgctttgtgttcaaatgtaatgcattttgatttttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGATGAATCTTGGCACCCG

Basic information

species Vitis vinifera
transcript Vv08s0105g00430.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0105g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G07570.1 (Glycine max), 3'ss of exon 2
-----------------------gtatgcttctggtgaaacaagctctgagcaatggatgcatattattctagttt----cagattgaga--atgctttgtgttcaaatgtaatgcattttgatttttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGATGAATCTTGGCACCCG
                        | |  ||||    | ||    | ||     ||        |||| ||| | |     |  ||  |   | ||||||   |  ||  | ||  | ||| ||   |  | |||||||||||| ||||| || ||||| || |||||||||||||| || |||||||||||||||||||| 
gtatgcttaatgctcctgctgaattgttgttctctgtagaccccttttgtcttgtgttctttgcttatcctaatctgcattatttttggcctaagctttgaaattgaaactgat--agtttcatgaattgtgcagGAGAATCAGTCATAGAACACATCATCAAAACCATGGCCATGTCGAAAATGATGAATCTTGGCACCCA

upper sequence: Vv08s0105g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G18350.1 (Glycine max), 3'ss of exon 2
gtatgcttctggtgaaacaagctctgagcaatggatgcatattattctagtttcagattgagaatgctttgtgttcaaatgtaatgcattttgatttttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGATGAATCTTGGCACCCG
  |   |     |   | |   |   ||  ||  |  || ||| | |   ||| |          | || |  ||||  | | |  |    |||| |||  | |||||||||||| |||||||||||||||||  | ||||| |||||||| ||||||||||| ||||| |||
--aaaatcaaatttctagatatttgtagggataaaaacacattttaccttttttattcgtttttagtttggaattcatgtttgaaac----tgatattttattcagGAGAATCAGTCATAGGACTCATCACCAACATCATGGTCATGTTGAAAATGATGAATCATGGCATCCG

upper sequence: Vv08s0105g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G29630.2 (Glycine max), 3'ss of exon 3
-------gtatgcttctg-gtgaaacaag----ctctgagcaa----tggatgcatattattctagtttcagattgagaatgctttgtgttcaaa----tgtaat--gcattttgatttttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGATGAATCTTGGCACCCG
         ||||| |||  ||||          |||  ||      | | |   | || ||    | ||| |    | ||  ||| |   | |     || ||     | ||| ||   |  | ||||||||| || ||||| || ||||| || ||||||||||||||||| || ||||||||||||||||||
gtaagcttaatgctcctgcatgaattgttgttcttcttggcccctttttgttttgtgttctttgcttatcataacaggcattatttctagcctatgctttgaaactgatagtttcatgaattgtgcagGAGAATTAGTCATAGAACACATCATCAAAACCATGGCCATGTTGAAAACGATGAATCTTGGCACCCG

upper sequence: Vv08s0105g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G43210.1 (Glycine max), 3'ss of exon 2
----gtatgcttctggtgaaacaagctctgagcaatggatgcatattattctagtttcagattgagaatgctttgtgttcaaatgtaatgcattttgatttttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGATGAATCTTGGCACCCG-
     ||   |     |   | |   |   ||  ||  |  || ||| | ||  |||    || ||     ||||  ||||  | | |  |    |||| |||  |||||||||||||| |||||||||||||||||  | ||||| |||| ||| ||||||||||| ||||| ||| 
aagactaaaatcaaattttgagatatttgtagggataaaaacacattttactcttttt---tttag----ttttgaattcatgtttgaaac----tgatattttatacaggAGAATCAGTCATAGGACTCATCACCAACATCATGGTCATGCTGAAAATGATGAATCATGGCATCCGG

upper sequence: Vv08s0105g00430.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S69_223V6.1 (Physcomitrella patens), 3'ss of exon 2
---------gtatgcttctggtgaaacaagctctgagcaatggatgcatattattctagtttcagattgagaatgcttt--gtgttcaaatgtaatgcattttgattt--ttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGATGAATCTTGGCACCCG
         |  |   |||  | | |   |   |  ||  || |||     | | ||    ||    |   |    |    ||   | ||| | |||    |||||||  ||| |||||| ||||||| || ||||| || ||||| |||||||||||||| ||||| || || || |||||||| 
gtgaggcaagcctatctcttcttacatttgagtttggcgttgaatgatccatttcctgtaatcgtgcttgtagcaatggaagtacccgaatctgatg----ttgatttggttggtacagGCGAATCAGTCACAGGACCCACCACCAAAACCATGGCCATGTGGAGAACGACGAGTCATGGCACCCT

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|351026647|gb|FQ436300.1|FQ436300
EST:     GTGGTCGGGCATCTTCTACATTCTTCCATTCTTGTGCCTTATCATGGATG                         GAGAATCAGCCATAGGACCTCATCACCAGAACCATGGCCATGTTGA
genomic: GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATGgtatgcttct ... tttgttacagGAGAATCAGCCATAGGAC-TCATCACCAGAACCATGGCCATGTTGA
EST: gi|33404634|gb|CF210261.1|CF210261
EST:     GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGCTG                         GAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
genomic: GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATGgtatgcttct ... tttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
EST: gi|351044129|gb|FQ452802.1|FQ452802
EST:     GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATG                         GAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
genomic: GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATGgtatgcttct ... tttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
EST: gi|33410242|gb|CF215869.1|CF215869
EST:     GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATG                         GAGAATCAGCCATAGGACTCATCACCAGAACCATGACCATGTTGAGAATGA
genomic: GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATGgtatgcttct ... tttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
EST: gi|110688711|gb|EE067575.1|EE067575
EST:     GCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATG                         GAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
genomic: GCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATGgtatgcttct ... tttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
EST: gi|351036570|gb|FQ457283.1|FQ457283
EST:     GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATG                         GAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
genomic: GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATGgtatgcttct ... tttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
EST: gi|71862276|gb|DT011331.1|DT011331
EST:     GTGGTCGGGCATCTTCTACACTCTTCAATTCTTGTGCCTTATCATGGCTG                         GAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
genomic: GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATGgtatgcttct ... tttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
EST: gi|351019279|gb|FQ429439.1|FQ429439
EST:     GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATG                         GAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
genomic: GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATGgtatgcttct ... tttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
EST: gi|349820121|gb|FQ404843.1|FQ404843
EST:     GTGGTCAGGCATCTTCTACATTCTTAAATTCTTGTGCCTTATCATGGATG                         GAGAATCAACCATAGGACTCATCACCAAAACCATGGCCATGTTGAGAATGA
genomic: GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATGgtatgcttct ... tttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
EST: gi|349820954|gb|FQ408662.1|FQ408662
EST:     GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATG                         GAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA
genomic: GTGGTCGGGCATCTTCTACATTCTTCAATTCTTGTGCCTTATCATGGATGgtatgcttct ... tttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcagattgagaatgctttgtgttcaaatgtaatgcattttgatttttgttacagGAGAATCAGCCATAGGACTCATCACCAGAACCATGGCCATGTTGAGAATGATGAATCTTGGCACCCG
                                     ttttgat  putative branch site (score: 4)
                                           tttttgtt  CT-rich tract
                                    attttgatttttgtta  TA-rich tract