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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGAAAAGATTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAAgtaggcacacatttccttccaaaagattattggaactctacttttttgctgtctatatgatacacatcttatcttgatatgattctgttgcttttctttttttattcatcaacag

Basic information

species Vitis vinifera
transcript Vv18s0166g00300.t01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0166g00300.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: LOC_Os01g13190.1 (Oryza sativa), 5'ss of exon 9
GTGGAAAAGATTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAAgtaggcacacatttccttccaaaagattattggaactctacttttttgctgtctatatgatacacatcttatcttgatatgattctgttgcttttctttttttattcatcaacag
|| ||||| || ||||| |||||||||||||||||||||||||||||||||||||| || ||    |  |   || |||   || ||  |    | | | ||    || || | ||||  | |   | | ||                                           
GTTGAAAAAATATTTGGACCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTTCAGgttc-tattctgatcattctgtaaaatcctgaacaatat-ctgccctggtgacaatatttttcttgtttgatggcag--------------------------------------

upper sequence: Vv18s0166g00300.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GRMZM2G058584_T01 (Zea mays), 5'ss of exon 11
GTGGAAAAGATTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAAgtaggcacacatttccttccaaaagattattggaactctacttttttgctgtctatatgatacacatcttatct-tgatatgattctgttgcttttctt-tttttattcatcaacag
|  || ||||||||||| ||||| || |||||||| || ||||| ||||||||||| || ||  |  |   ||  ||||||      |  |  |||| |||  ||   |  ||| |   | | ||||||| ||| || ||   |  | ||||  ||||  ||||||||   |  |||
GCTGAGAAGATTTTTGGACCTGGTAACCAGTATGTAACAGCTGCCAAAATGATTCTTCAGgtttgttcttgtt--cttcca------ttgtaaaactttaccatt--accttctttgcca-atacatcttttctatggtaaattgtttttgcggttctaatttttattttactgcag

upper sequence: Vv18s0166g00300.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA15G13910.1 (Glycine max), 5'ss of exon 9
GTGGAAAAGATTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAAgtaggcacacatttccttccaaaagattattggaactctacttttttgctgtctatatgatacacatcttatcttgatatgattctgttgcttttctttttttattcatcaacag
|| ||||||||||||||||||||||| || |||||||| |||||||||||||| || |||||| |||    | |  | |   || |||  |||| || ||    |   || | || ||   |    |   ||||| |     |||||  |                         
GTTGAAAAGATTTTTGGCCCTGGAAACCAATATGTCACTGCTGCAAAAATGATACTTCAAgtaagcatgtttatattgcattaaaatttatggatctgta----tccactat-tacatttcatttcttgaatcttaaatc--ttctgcag-------------------------

upper sequence: Vv18s0166g00300.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA09G02960.1 (Glycine max), 5'ss of exon 9
GTGGAAAAGATTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAAgtaggcacacatttccttccaaaagattattggaactctacttttttgctgtctatatgatacacatcttatctt-gatatgattctgttgcttttctttttttattcatcaacag
|| ||||||||||||||||||||||| || |||||||| |||||||||||||| || |||||| |||    | |    |   |  |||  |||| |  ||    |   || | || ||        |   ||||| ||| |  | |  ||  ||  |||||   | || |   |||
GTTGAAAAGATTTTTGGCCCTGGAAACCAATATGTCACTGCTGCAAAAATGATACTTCAAgtaagcatgtttatatcacattagaatttatggatccgta----tccactat-tacatttcgtttgttgaatcttagatcttctgcatttctttaccttttgaaaatcttatgcag

upper sequence: Vv18s0166g00300.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA08G08630.1 (Glycine max), 5'ss of exon 8
GTGGAAAAGATTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAAgtaggcacacatttccttccaaaagattattggaactctacttttttgctgtctatatgatac-acatcttatcttgatatgattctgttgcttttctttttttattcatcaacag
|| || || ||||||||||| ||||| || |||||||| |||||||||||||| || |||||  ||    | |  ||  | |   ||| |    | | |  ||   | ||    || | |||  | |  |||||  | | | |   | ||| |     | || |            
GTTGAGAAAATTTTTGGCCCAGGAAACCAATATGTCACAGCTGCAAAAATGATACTACAAgtgagctttgaatctctctctatctattttatacattgtgtttcact-cttcagatcttatattatagtttatcccgcttt-acattattgttgaaaatattctgcag--------

upper sequence: Vv18s0166g00300.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT5G63890.1 (Arabidopsis thaliana), 5'ss of exon 8
----------------------------------------GTGGAAAAGATTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAAgtaggcacacatttccttccaaaagattattggaactctacttttttgctgtctatatgatacacatcttatcttgatatgattctgttgcttttctttttttattcatcaacag
                                        || || ||||||||||| ||||| || ||||||||||| ||||| || |||||||| ||||||   | |   ||| |    ||  | | |||   |   |||| ||||  |||| ||   ||| |   ||| | || | |  |||  || ||                       
TATAGCTGCCATGGCCTGGGGGACAGATTCTTGTCCAAAGGTTGAGAAGATTTTTGGTCCTGGGAACCAGTATGTCACAGCTGCTAAGATGATTCTTCAAgtatagatatcgttcatc---aattacttttgt--cctaacttgtttggagtctctagactactc--tttaacctgcttt--ttcccttactgcag-------------------

upper sequence: Vv18s0166g00300.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: PP1S233_40V6.1 (Physcomitrella patens), 5'ss of exon 10
GTGGAAAAGATTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAAgtaggcacacatttccttccaaaagattattggaactctacttttttgctgtctatatgatacacatcttatcttgatatgattctgttgcttttctttttttattcatcaacag
||||| ||  ||||||| ||||||||||||||||| ||||||||||||||| | || || | | |           |  || |   | ||| |  || | |  ||| |   | |      | |  |||  || |  |  | ||    |    |   || ||   | ||       
GTGGATAAAGTTTTTGGACCTGGAAATCAGTATGTTACGGCTGCAAAAATGTTGCTTCAGgcatg-----------tctcacacactcattagctcttttccatttcgtgttgttccctctgcctatcgaatgtgaaatttatcgcatctgctcatttcttcagtgcagat----

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|30251428|gb|CB969161.1|CB969161
EST:     TTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAA                         AATAGTGAAGCTATGGTTTCAATTGATATGCCTGCGGGTCCATCAGAAGTT
genomic: TTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAAgtaggcacac ... tcatcaacagAATAGTGAAGCTATGGTTTCAATTGATATGCCTGCGGGTCCATCAGAAGTT
EST: gi|71885572|gb|DT034627.1|DT034627
EST:     TTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAA                         AATAGTGAAGCTATGGTTTCAATTGATATGCCTGCGGGTCCATCAGAAGTT
genomic: TTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAAgtaggcacac ... tcatcaacagAATAGTGAAGCTATGGTTTCAATTGATATGCCTGCGGGTCCATCAGAAGTT
EST: gi|351054495|gb|FQ450579.1|FQ450579
EST:     TTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAA                         AATAGTGAAGCTATGGTTTCAATTGATATGCCTGCGGGTCCATCAGAAGTT
genomic: TTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAAgtaggcacac ... tcatcaacagAATAGTGAAGCTATGGTTTCAATTGATATGCCTGCGGGTCCATCAGAAGTT
EST: gi|71882273|gb|DT031328.1|DT031328
EST:     TTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAA                         AATAGTGAAGCTATGGTTTCAATTGATATGCCTGCGGGTCCATCAGAAGTT
genomic: TTTTTGGCCCTGGAAATCAGTATGTCACGGCTGCAAAAATGATTCTCCAAgtaggcacac ... tcatcaacagAATAGTGAAGCTATGGTTTCAATTGATATGCCTGCGGGTCCATCAGAAGTT