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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttctcagtgaactttttctttcaaaagaacagatgcattaatgcttgaaatactgtcctaaacagatttggtgtgcattctcaatcttgtttcttttcagATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTGGAACAATTTGACCACCACTGCCCTTGGATTTCAAATTGTGTAGGGAAG

Basic information

species Vitis vinifera
transcript Vv03s0088g01260.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0088g01260.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os11g34860.1 (Oryza sativa), 3'ss of exon 9
-----------------------------------------------------------gttttctcagtgaactttttctt--tcaaaagaacaga--tgcat-taatgcttgaaatactgt---cctaaacagatttggtgtgcattctcaatcttgttt------cttttcagATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTGGAACAATTTGACCACCACTGCCCTTGGATTTCAAATTGTGTAGGGAAG
                                                             | | |  ||| | || ||| |  | ||| || || |  ||||| | ||  ||    |  | |   | ||   |  |  |   | |    |  ||||| |||      |||  ||||||||| | ||  | ||||| || || || || || ||||||| |||||| || || |||||||| ||||| |||||||| ||||||||||| || | |
gtattgtaagaacctattttatttttattctttttaattccaaattccttttttcctttcatatttttgtgtatttcttcatactgaaatgaccatatctgcatatgatatttatttttttctattcttatgtatgtcagaaataccaattacatcttttttttgtgacttaccagATAATTCGCCCAATGCGCTCCAAACATTGTCCAACTTGTAAGCACTGTGTTGAGCAGTTTGACCATCACTGTCCTTGGATATCAAATTGTGTTGGAAGG

upper sequence: Vv03s0088g01260.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G06860.1 (Glycine max), 3'ss of exon 9
gttttctcagtgaactttt--tctttcaaaagaacagatgcattaatgcttgaaatactgtcctaaacagatttggtgtgcattctcaa----------------tcttgtttcttt-----------tcagATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTGGAACAATTTGACCACCACTGCCCTTGGATTTCAAATTGTGTAGGGAAG
|||  |    |   |||||     || |||| | |  |||  || |  ||| |  ||| || ||  |      |    |  ||||||||                ||  ||||  |            ||||||||| |||||||| || || ||||| ||||| || |||||||| ||||||||||| |||||||||||||| || ||||| || || ||||| ||||||
gttcacatgatattcttttgagtatttaaaaaatctaatg--ttgacactttacttacagttctgtattttactttattaaattctcaaaacaagttatcgcttatcaggttttctcgaattgtatcatcagATAATAAGACCTGTCCGATCTAAGCATTGCCCAACTTGTAAGCGATGTGTGGAACAGTTTGACCACCACTGTCCATGGATATCTAACTGTGTTGGGAAG

upper sequence: Vv03s0088g01260.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G30380.1 (Glycine max), 3'ss of exon 9
------------gttttctcagtg-----aactttttctttcaaaagaacagatgcattaatgcttgaaatactgtcctaaacagatttggtgtg-cattctcaatcttgtt-tcttttcagATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTGGAACAATTTGACCACCACTGCCCTTGGATTTCAAATTGTGTAGGGAAG
             | || | |||      ||  | |  | |  | |    |  | ||||  || ||   | | | ||  ||  || | | |  |  ||   |   ||   || | |  ||||||||| |||||||| || || ||||| ||||| || |||||||| ||||||||||| || ||||||||||| || ||||| || || ||||| ||||||
gtttacatgatattcttttgagtatttaaaaaatctaatgttgatactttacttacatttctgtttattaaattctcaaaacaagttatcgcttatcaggttttctcgaattgtatcatcagATAATAAGACCTGTCCGATCTAAGCATTGCCCAACTTGTAAGCGATGTGTGGAACAGTTCGACCACCACTGTCCATGGATATCTAACTGTGTTGGGAAG

upper sequence: Vv03s0088g01260.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G14255.1 (Arabidopsis thaliana), 3'ss of exon 9
gttttctcagtgaactttttctttcaaaagaacagatgcattaatgcttgaaatactgtcctaaacagatttggtgtgcattctcaatcttgtttcttttcagATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTGGAACAATTTGACCACCACTGCCCTTGGATTTCAAATTGTGTAGGGAAG
||||||       | |  || |||||   ||  |    | |  ||  ||    |  | | ||||  | | ||    |               ||| | |||||||||||||||| || || || ||||||||||| || ||||||||||| || ||||| |||||||| |||||||| |||||||| || ||||| || |||
gttttcctc----aatccttatttcaggggatta----cctcgatattttctttgtt-ttctaactacaattatcat---------------tttttcttcagATAATTAGACCGGTGCGATCTAAGCACTGCCCCACTTGTAAGCGCTGCGTTGAACAGTTTGACCATCACTGCCCCTGGATTTCCAACTGTGTTGGTAAG

upper sequence: Vv03s0088g01260.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: PP1S70_186V6.2 (Physcomitrella patens), 3'ss of exon 11
----------------------------------------------------------gttttctcagtgaactttttctttcaaaagaacagatgcat-taatgcttgaaatactgtcctaaaca--gatttggtgtgcattc---tcaatcttgtttctttt-cagATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTGGAACAATTTGACCACCACTGCCCTTGGATTTCAAATTGTGTAGGGAAG
                                                          |||   ||| |  | |   |  || || |||   | | ||| || | |||    | |||   |||     ||| |     ||  |    |||   ||| || ||    ||||  | |||||  | || || ||||| ||| |  |||| || |||||||| || ||||||||||| || || |||||||||||||||||||| || |||
gtttgtcagttcgattattcacctcattcgatttgatttcctaagttattagaaacctgttcgatcaatttaatggcttcttgaatagagt-gctacatgtacttctttgtgtgctggagtaagtcttgatatccctagccgttgggtcatggttgcttgttcaatagATTGTGAGACCATTGCGATCCAAGCATTGCTCCTCATGCAACCGCTGTGTCGATCAATTTGACCATCATTGTCCTTGGATTTCAAATTGTGTTGGCAAG

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|351049556|gb|FQ429178.1|FQ429178
EST:     ATTTCTCCATATGGACGGGAAATTGGTCTCAACTTTGCCCCACTTGCAAG                         ATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTG
genomic: ATTCCTCCATATGGACGGGAAATTGGTCTCAACTTTGCCCCACTTGCAAGgttttctcag ... ttcttttcagATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTG
EST: gi|351029081|gb|FQ435281.1|FQ435281
EST:     ATTTCTCCATATGGACGGGAAATTGGTCTCAACTTTGCCCCACTTGCAAG                         ATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTG
genomic: ATTCCTCCATATGGACGGGAAATTGGTCTCAACTTTGCCCCACTTGCAAGgttttctcag ... ttcttttcagATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTG
EST: gi|351030865|gb|FQ438901.1|FQ438901
EST:     ATTTCTCCATATGGACGGGAAATTGGTCTCAACTTTGCCCCACTTGCAAG                         ATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTG
genomic: ATTCCTCCATATGGACGGGAAATTGGTCTCAACTTTGCCCCACTTGCAAGgttttctcag ... ttcttttcagATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTG
EST: gi|351018912|gb|FQ426411.1|FQ426411
EST:     ATTTCTCCATATGGACGGGAAATTGGTCTCAACTTTGCCCCACTTGCAAG                         ATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTG
genomic: ATTCCTCCATATGGACGGGAAATTGGTCTCAACTTTGCCCCACTTGCAAGgttttctcag ... ttcttttcagATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTG
EST: gi|161717421|gb|FC068873.1|FC068873
EST:     ATTCCTCCATATGGACGGGAAATTGGTCTCAACTTTGCCCCACTTGCAAG                         ATAATTAAACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTG
genomic: ATTCCTCCATATGGACGGGAAATTGGTCTCAACTTTGCCCCACTTGCAAGgttttctcag ... ttcttttcagATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaaatactgtcctaaacagatttggtgtgcattctcaatcttgtttcttttcagATAATTAGACCTGTTCGCTCAAAGCACTGCCCTACATGTAAGCGCTGTGTGGAACAATTTGACCACCACTGCCCTTGGATTTCAAATTGTGTAGGGAAG
          tcctaaa  putative branch site (score: 2)
                                ttctcaatcttgtttc  putative PPT
                                            tttctttt  TA-rich tract