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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatagcatgatctaggttttcgttgcctcttaaacaaaatatatgttttttttctttttcctgtaaaatttgtttcttatctgttactactttttttatcagtaatattttattattgaattatgggcatttagagtaactgtgttttcttcgtcgctgtagGTTGGGTATACTCCTGATTATTTGTTCCTTCTGCAAACCATTCTTCGATCAGATCCTCAG

Basic information

species Vitis vinifera
transcript Vv13s0067g01290.t01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 13
gtgaatagcatgatctaggttttcgttgcctcttaaacaaaatatatgttttttttctttttcctgtaaaatttgtttcttatctgttactactttttttatcagtaatattttattattgaattatgggcatttagagtaactgtgttttcttcgtcgctgtagGTTGGGTATACTCCTGATTATTTGTTCCTTCTGCAAACCATTCTTCGATCAGATCCTCAG
                                                           |   |  ||| || | |    || |   | ||| | |||||| |  |||  || | || |    | |||     |||     | ||| |  | || ||  ||  |||||||||| || ||||||||  |||| |||||||||||||| || ||  |||||||||||
----------------------------------------------------------gtaagcaataagatctatagtataacctcttctattatttttaccc-taaagttctgttgtc---tcatgaa---tta---ccattgtttcatatt-gtgacttcagGTTGGGTACACACCTGATTACCTGTTTCTTCTGCAAACCATACTCCGTACAGATCCTCAG

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: PP1S452_30V6.1 (Physcomitrella patens), 3'ss of exon 14
gtgaatagcatgatctaggttttcgttgcctcttaaacaa--aatatatgttttttttctttttcctgtaaaatttgtttcttatctgttactactttttttatcagtaatattttattattgaattatgggcatttagagtaactgtgttttcttcgtcgctgtagGTTGGGTATACTCCTGATTATTTGTTCCTTCTGCAAACCATTCTTCGATCAGATCCTCAG
|| | |  |||| || |  | || | || |||||   |    |  |  || ||| |||| |||  |  |  | ||         | |   | | | ||| || |  ||           |    |  |   |  | | |  | || |   ||| | |  | ||||||||||||||||| || |||||| ||||||| ||||| || || || | |||||||||||||
gttagt--catgctcaaaatatttgatggctcttggcctttcacaacgtgctttgtttcctttggcattgcatttcagg----gtattcaattgcctttcttctttgtgcgggggagcaaacctac-acacgtgtattgtttgac-gcagtttttcctacactgtagGTTGGGTATACACCAGATTATCTGTTCCTGCTGCAGACAATACTGCTATCAGATCCTCAG
















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|122689653|gb|EC942290.1|EC942290
EST:     CCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAG                         GTTGGGTATACTCCTGATTATTTGTTCCTTCTGCAAACCATTCTTCGATCA
genomic: CCTTTGCTGAGCGTCGGGAGTTTGACAAAATTCTGATATACTCAAAGCAGgtgaatagca ... gtcgctgtagGTTGGGTATACTCCTGATTATTTGTTCCTTCTGCAAACCATTCTTCGATCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttattattgaattatgggcatttagagtaactgtgttttcttcgtcgctgtagGTTGGGTATACTCCTGATTATTTGTTCCTTCTGCAAACCATTCTTCGATCAGATCCTCAG
                          gagtaac  putative branch site (score: 2)
                                     ttttcttcgtcgct  putative PPT
     ttattgaattat  TA-rich tract