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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttttggtttgaaattgttcatcatcaggacttccaaatttacacattgtgcctgaattaaataaaataaacatgtcagGTCATGGACATGTTGGGGCCAAGTCTTTGGGATCTTTGGAATTCTGTAGGCCAGAC

Basic information

species Vitis vinifera
transcript Vv08s0007g07420.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G04580.1 (Glycine max), 3'ss of exon 5
gtgagttttggtttgaaattgttcatcatcaggacttccaaatttacacattgtgcctgaattaaataaaataa-acatgtcagGTCATGGACATGTTGGGGCCAAGTCTTTGGGATCTTTGGAATTCTGTAGGCCAGAC
||||| | ||||||||| ||   ||| ||||| |  |    |||| | | ||||   ||  | ||  |||| || | || |||||||||||||||| | ||||| |||||||||||| | ||||||||||| || ||   
gtgagatatggtttgaactttaccat-atcagcatatgttgatttgctctttgt---tgtctaaaggaaaacaatatatttcagGTCATGGACATGCTTGGGCCCAGTCTTTGGGATGTATGGAATTCTGTTGGTCAACA

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G03940.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgag-ttttggtttgaaattgttcat-catcaggacttccaaatttacacattgtgcctgaattaaataaaataaacatgtcagGTCATGGACATGTTGGGGCCAAGTCTTTGGGATCTTTGGAATTCTGTAGGCCAGAC
|| || |||| || |||   |  |||  |||   ||       | | |   ||  |   ||||  ||     ||||  || |||||||||||||||| | ||||| || ||||||||| ||||||||||| | |  ||  |
gtaagcttttcgtatgagcctagtcacacattgagat-----gaatcaggtatctttaatgaagaaacatttataattatttcagGTCATGGACATGCTTGGGCCTAGCCTTTGGGATGTTTGGAATTCTTTGGCTCAATC

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G18190.1 (Arabidopsis thaliana), 3'ss of exon 5
--gtgagttttggtttgaaattgttcatcatcaggacttccaaatttaca----cattgtgcctgaatta-aataaaataaacatgtcagGTCATGGACATGTTGGGGCCAAGTCTTTGGGATCTTTGGAATTCTGTAGGCCAGAC
   ||   |||    |||  ||  | |  |  |    ||| | ||| |       ||  ||    | | |   || |||| | |  |||||||||||||||| | || || ||||| |||||| |||||||||||   || ||  |
gtatgtaatttacaatgagctttgtta--aatatactttcgatattgattgtgttatcatgtacaagtaatgctataatatatacttcagGTCATGGACATGCTTGGTCCGAGTCTCTGGGATGTTTGGAATTCTTCGGGGCAATC

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S66_174V6.1 (Physcomitrella patens), 3'ss of exon 4
-----------------------------------------gtgagttttggtttgaaattgttcatcatcaggacttc-----caaatt----tacacattgtgcctgaattaaataaaataaacatgtc-agGTCATGGACATGTTGGGGCCAAGTCTTTGGGATCTTTGGAATTCTGTAGGCCAGAC
                                           || || | || |   ||| |||   ||  | | ||      | | ||    | |  | |     | | | |         | | |||| |||||||||| ||| | |||||||||||||||||| ||||||| |||  ||||||| |
gtgggctattcacagaaaatagatgaatttacacatgctgatagatttcttgtctttgattattcccgatttgaaatttttgtacgagttctcttccgaaatacattttattcacccgttgatatcttgtccagGTCATGGATATGCTTGGGCCAAGTCTTTGGGATGTTTGGAACTCTTCAGGCCAGGC

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|110385816|gb|EC950372.1|EC950372
EST:     GGATTCCCTGGGTTCACTACAAGGGTCGCCAAGGAGATTACTACATTCTG                         GTCATGGACATGTTGGGGCCAAGTCTTTGGGATCTTTGGAATTCTGTAGGC
genomic: GGATTCCCTGGGTTCACTACAAGGGTCGCCAAGGAGATTACTACATTCTGgtgagttttg ... aacatgtcagGTCATGGACATGTTGGGGCCAAGTCTTTGGGATCTTTGGAATTCTGTAGGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaggacttccaaatttacacattgtgcctgaattaaataaaataaacatgtcagGTCATGGACATGTTGGGGCCAAGTCTTTGGGATCTTTGGAATTCTGTAGGCCAGAC
                             tgaattaaataaaata  TA-rich tract