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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgcaaactttgaaatttagagttctgaaaaaaaaaaaaaaaactgcaatgccataactgttgtattctcttgcagATCCTATCAAAGAAAGGTGTTGTCATTCTTCCAGACATATATGCAAACTCGGGGGGAGTCACTGTCAGTTATTTTGAGTGGGTTCAG

Basic information

species Vitis vinifera
transcript Vv08s0007g07400.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os03g58040.1 (Oryza sativa), 3'ss of exon 8
--------gttagtgcaaactttgaaatttagagttctgaaaaaaaaaaaaaaaac--------tgcaatgccataactgttgtattctcttgcagATCCTATCAAAGAAAGGTGTTGTCATTCTTCCAGACATATATGCAAACTCGGGGGGAGTCACTGTCAGTTATTTTGAGTGGGTTCAG
         |  |     |  | | |    |     |  | |  || ||||   ||        || |||||  |  || |    | ||  |||||||||| || |||||||| ||| ||||||||||||||||    || ||||| || || ||||| || || || || ||||||||||||
gcaagcacatctgacagtatctggcagacaaataccccaacagcaacaaaatgtaccatttgtctgaaatgctttctctctgaattccttctgcagATCCTGTCCAAGAAAGGCGTTCTCATTCTTCCAGACATCCTCGCGAACTCCGGTGGTGTCACAGTGAGCTACTTCGAGTGGGTTCAG

upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G18170.1 (Arabidopsis thaliana), 3'ss of exon 7
----gttagtgcaaactttgaaatttagagttctgaaaaaaaaaaaaaaaactgcaatgccataactgttgtattctcttgcagATCCTATCAAAGAAAGGTGTTGTCATTCTTCCAGACATATATGCAAACTCGGGGGGAGTCACTGTCAGTTATTTTGAGTGGGTTCAG
    | | ||       ||  | ||| |||||    |     ||       ||| ||||     | | |||||||      |||||||||   ||||||||||| || ||||| || ||||||||||||||||| || ||||||||||| ||||| || || |||||||||
gtttgattgtcttcttctttgactttggagtttctcattgcgaatct----ctgtaatg--gagattcttgtatt-----acagATCCTAAGTAAGAAAGGTGTGGTTATTCTCCCGGACATATATGCAAACTCTGGAGGAGTCACTGTAAGTTACTTCGAATGGGTTCAG

upper sequence: Vv08s0007g07400.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G03910.1 (Arabidopsis thaliana), 3'ss of exon 7
gttagtgcaaactttgaaatttaga----gttctgaaaaaaaaaaaaaaaactgcaatgccataactgttgtattctctt--gcagATCCTATCAAAGAAAGGTGTTGTCATTCTTCCAGACATATATGCAAACTCGGGGGGAGTCACTGTCAGTTATTTTGAGTGGGTTCAG
|||| |  ||| | ||| | || |     | |||           |||     | ||    |   ||||  |||     |  ||||||| |    |||||||||||| | || || ||||| ||||| |||||||| || ||||||||||| ||||| || ||||||||||||
gttattcgaaaatctgatactttgtttttgctctttcttcttctcaaactcgcgtaacagaaactctgtaatatctgtctccgcagATCTTGAAGAAGAAAGGTGTTATGATCCTCCCAGATATATACGCAAACTCAGGAGGAGTCACTGTAAGTTACTTCGAGTGGGTTCAG

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|110695999|gb|EE074656.1|EE074656
EST:     AATTTATTATTGAAGCAGCCAACCATCCAACAGACCCTGAAGCAGATGAG                         ATCCTATCAAAGAAAGGTGTTATCATTCTTCCAGACATATATGCAAACTCG
genomic: AATTTATTATTGAAGCAGCCAACCATCCTACAGACCCTGAAGCAGATGAGgttagtgcaa ... tctcttgcagATCCTATCAAAGAAAGGTGTTGTCATTCTTCCAGACATATATGCAAACTCG
EST: gi|33404831|gb|CF210458.1|CF210458
EST:     AATTTATTATTGAAGCAGCCAACCATCCTACAGACCCTGAAGCAGATGAG                         ATCCTATCAAAGAAAGGTGTTGTCATTCTTCCAGACATATATGCAAACTCG
genomic: AATTTATTATTGAAGCAGCCAACCATCCTACAGACCCTGAAGCAGATGAGgttagtgcaa ... tctcttgcagATCCTATCAAAGAAAGGTGTTGTCATTCTTCCAGACATATATGCAAACTCG
EST: gi|33404746|gb|CF210373.1|CF210373
EST:     AATTTATTATTGAAGCAGCCAACCATCCTACAGACCCTGAAGCAGATGAG                         ATCCTATCAAAGAAAGGTGTTGTCATTCTTCCAGACATATATGCAAACTCG
genomic: AATTTATTATTGAAGCAGCCAACCATCCTACAGACCCTGAAGCAGATGAGgttagtgcaa ... tctcttgcagATCCTATCAAAGAAAGGTGTTGTCATTCTTCCAGACATATATGCAAACTCG
EST: gi|110428368|gb|EC994837.1|EC994837
EST:     AATTTATTATTGAAGCAGCCAACCATCCAACAGACCCTGAAGCAGATGAG                         ATCCTATCAAAGAAAGGTGTTATCATTCTTCCAGACATATATGCAAACTCG
genomic: AATTTATTATTGAAGCAGCCAACCATCCTACAGACCCTGAAGCAGATGAGgttagtgcaa ... tctcttgcagATCCTATCAAAGAAAGGTGTTGTCATTCTTCCAGACATATATGCAAACTCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttctgaaaaaaaaaaaaaaaactgcaatgccataactgttgtattctcttgcagATCCTATCAAAGAAAGGTGTTGTCATTCTTCCAGACATATATGCAAACTCGGGGGGAGTCACTGTCAGTTATTTTGAGTGGGTTCAG
                              ccataac  putative branch site (score: 3)
                                          tattctctt  putative PPT
      aaaaaaaaaaaaaaaa  TA-rich tract