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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcatactattttcacatatatagatgaacaaagctaatttcgatttttattatcttaacatactcttttaaatgattgtgcagAGCAAGATATGGAGTTCAACTCGAGAAAGGGCCATTTGAAAGGCGGACAGCAGACTTTTTGTGGATGATGATCTTTGGATCCTTCACTCTATTG

Basic information

species Arabidopsis thaliana
transcript AT4G29330.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G29330.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA05G35990.1 (Glycine max), 3'ss of exon 3
gtgagcatactattttcacatatatagatgaacaaagctaatttcgatttttattatcttaacatactcttttaaat------------gattgtgcagAGCAAGATATGGAGTTCAACTCGAGAAAGGGCCATTTGAAAGGCGGACAGCAGACTTTTTGTGGATGATGATCTTTGGATCCTTCACTCTATTG
|| || |    |     | || |||  |   ||||      |||   |   |||||    || |  ||  | |||||             ||| | ||||| ||| ||||| || ||||| |||||||| ||||||||  | ||||| || || || |||||||||||||| |||||  ||||  | ||||||
gtaagtaattcaaggata-atgtatgcaactacaatctctgttttcttgcatattaaac-aagaagcttatataaattaataattcttaaattctacagAGTAAGGTATGGTGTCCAACTTGAGAAAGGACCATTTGACCGACGGACTGCTGATTTCTTGTGGATGATGATATTTGGTGCCTTTGCACTATTG

upper sequence: AT4G29330.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G03630.1 (Glycine max), 3'ss of exon 3
gtgagca-tactattttcacatatatag--atgaacaaagctaatttcgattttta---------ttatcttaacatactcttttaaatgattgtgcagAGCAAGATATGGAGTTCAACTCGAGAAAGGGCCATTTGAAAGGCGGACAGCAGACTTTTTGTGGATGATGATCTTTGGATCCTTCACTCTATTG
|| || | | | |   | |  |||  |   |  | |   |||   ||  || || |         |||| | ||   | |  ||   |  ||| | ||||| ||| ||||| || ||||| |||||||| ||||||||  | ||||| || || || |||||||||||||| |||||  ||||  | ||||||
gtaagtaattcaaggataatgtatgcaacaacaatctctgctttcttgcatattgaacaagaagtttatataaatgaattaattctta-aattctacagAGTAAGGTATGGTGTCCAACTTGAGAAAGGACCATTTGATCGACGGACTGCTGATTTCTTGTGGATGATGATATTTGGTGCCTTTGCACTATTG

upper sequence: AT4G29330.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv04s0008g00510.t01 (Vitis vinifera), 3'ss of exon 3
------------------------------------------------------------------------gtgagcatactattttcacata---tatagatgaac----aaagctaatttcg--------atttttat--tatcttaacatactcttttaaatgattgt-gcagAGCAAGATATGGAGTTCAACTCGAGAAAGGGCCATTTGAAAGGCGGACAGCAGACTTTTTGTGGATGATGATCTTTGGATCCTTCACTCTATTG
                                                                         |   |||   | ||    | |   | |||  ||||    |||  |   |||         |  ||||   |   || |||||||          |||||  |||||| |||||||| || || || ||||| ||   |||||||||||| || ||||| || |||||||||||||| |||||| |  | ||  |  ||
gtaagtgtaactgtgtaaatcccagaagcttctcttgagttcaccctgaagtctgtgtgcacacttttgtggatttccatgtaacttgtctagagtttgtaggggaaccttgaaaaattgcttcatggaacctacctttaccctgcatttacatactgcaaagttatattgttacagAGCCAGATATGGGGTCCAGCTGGAGAAGGGAGTATTTGAAAGGCGCACGGCAGATTTCTTGTGGATGATGATATTTGGAGCTCTGACATTGCTG

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|86072451|gb|DR368208.1|DR368208
EST:     TTTTTCCTCGGTGGTTTCTCTATCAATTTTGGAATACGTCTTTTGATGAT                         AGCAAGATATGGAGTTCAACTCGAGAAAGGGCCATTTGAAAGGCGGACAGC
genomic: TTTTTCCTCGGTGGTTTCTCTATCAATTTTGGAATACGTCTTTTGATGATgtgagcatac ... gattgtgcagAGCAAGATATGGAGTTCAACTCGAGAAAGGGCCATTTGAAAGGCGGACAGC
EST: gi|86072452|gb|DR368209.1|DR368209
EST:     TTTTTCCTCGGTGGTTTCTCTATCAATTTTGGAATACGTCTTTTGATGAT                         AGCAAGATATGGAGTTCAACTCGAGAAAGGGCCATTTGAAAGGCGGACAGC
genomic: TTTTTCCTCGGTGGTTTCTCTATCAATTTTGGAATACGTCTTTTGATGATgtgagcatac ... gattgtgcagAGCAAGATATGGAGTTCAACTCGAGAAAGGGCCATTTGAAAGGCGGACAGC
EST: gi|86072450|gb|DR368207.1|DR368207
EST:     TTTTTCCTCGGTGGTTTCTCTATCAATTTTGGAATACGTCTTTTGATGAT                         AGCAAGATATGGAGTTCAACTCGAGAAAGGGCCATTTGAAAGGCGGACAGC
genomic: TTTTTCCTCGGTGGTTTCTCTATCAATTTTGGAATACGTCTTTTGATGATgtgagcatac ... gattgtgcagAGCAAGATATGGAGTTCAACTCGAGAAAGGGCCATTTGAAAGGCGGACAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaagctaatttcgatttttattatcttaacatactcttttaaatgattgtgcagAGCAAGATATGGAGTTCAACTCGAGAAAGGGCCATTTGAAAGGCGGACAGCAGACTTTTTGTGGATGATGATCTTTGGATCCTTCACTCTATTG
                        tcttaac  putative branch site (score: 2)
              atttttattatcttaa  TA-rich tract