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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgctacactgaatcttgaatcatgtgtctatatgggaaacaattgtttctaatgaaagactcttatgatttccaatgaatcatgtgtatgtatatgaagcttgagtggatcttttgtgtgttcccaacaatgtaatagTTGTCAGATGCTGGATTTCATTGCTTTGCACCTGACTGGATAGGATTCGGATTCAGTGACAAACCGCAGCCTGGATACGGTTTTAATTACACAG

Basic information

species Arabidopsis thaliana
transcript AT1G52510.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G52510.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G117531_T02 (Zea mays), 3'ss of exon 3
gtgctacactgaatcttgaatcatgtgtctatatgggaaacaattgtttctaatgaaagactcttatgatttccaatgaatcatgtgtatgtatatgaagcttgagtggatcttttgtgtgttcccaacaatgtaatagTTGTCAGATGCTGGATTTCATTGCTTTGCACCTGACTGGATAGGATTCGGATTCAGTGACAAACCGCAGCCTGGATACGGTTTTAATTACACAG------
                                      |||       | || |  || | | || | | |  || || ||| | ||| | || || ||   | |    ||| | |  || |       ||  ||| || || |||||||||| |  || |||||||||||||||||||| ||||| || |||||||| |  || || |||||||| || ||  | |  | ||      
---------------------------------cttagaactcccacgtttattacaacattatttttaatcacattgcatcttttgttt-ta-atcaa---ttatcacatcctctaagtatcttttgaaa-ataaaagATGGCAGATGCTGGCTACCACTGCTTTGCACCTGACTGGATCGGATTTGGGTTCAGTGAAATGCCACAACCTGGATATGGATTCGACTTTAAAGGTCAGG

upper sequence: AT1G52510.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G117531_T04 (Zea mays), 3'ss of exon 3
gtgctacactgaatcttgaatcatgtgtctatatgggaaacaattgtttctaatgaaagactcttatgatttccaatgaatcatgtgtatgtatatgaagcttgagtggatcttttgtgtgttcccaacaatgtaatagTTGTCAGATGCTGGATTTCATTGCTTTGCACCTGACTGGATAGGATTCGGATTCAGTGACAAACCGCAGCCTGGATACGGTTTTAATTACACAG
                                      |||       | || |  || | | || | | |  || || ||| | ||| | || || ||   | |    ||| | |  || |       ||  ||| || || |||||||||| |  || |||||||||||||||||||| ||||| || |||||||| |  || || |||||||| || ||  | |  | ||
---------------------------------cttagaactcccacgtttattacaacattatttttaatcacattgcatcttttgttt-ta-atcaa---ttatcacatcctctaagtatcttttgaaa-ataaaagATGGCAGATGCTGGCTACCACTGCTTTGCACCTGACTGGATCGGATTTGGGTTCAGTGAAATGCCACAACCTGGATATGGATTCGACTTTAAAG

upper sequence: AT1G52510.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G22840.1 (Glycine max), 3'ss of exon 3
gtgctacactgaatcttgaatcatgtgtctatatgggaaacaattgtttctaatgaaagactcttatgatttccaatgaatcatgtgtatgtatatgaagcttgagtggatcttttgtgtgttcccaacaatgtaatagTTGTCAGATGCTGGATTTCATTGCTTTGCACCTGACTGGATAGGATTCGGATTCAGTGACAAACCGCAGCCTGGATACGGTTTTAATTACACAG
                           | ||||| |    || ||     | || | | | | ||    | |  ||||| | ||   ||| || |||    ||      || | || |   |||||  |  |  || ||||||| ||||| || || || |||||||||||||||||||||||||| || |||||||||||||| ||||| ||||| ||||||||||||||||
---------------------------tttatattgt---cattttacctttattacatattttt-cagtatgtaatgattaatac-tat-taaatggttatt------atttattttaatttccctcctcttaaacagTTGTCGGATGCAGGGTTCCACTGCTTTGCACCTGACTGGATAGGATTTGGTTTCAGTGACAAACCACAGCCAGGATATGGTTTTAATTACACAG

upper sequence: AT1G52510.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G03260.1 (Glycine max), 3'ss of exon 3
gtgctacactgaatcttgaatcatgtgtctatatgggaaacaattgtttctaatgaaagactcttatgatttccaatgaatcatgtgtatgtatatgaagcttgagtgg-atcttttgtgtgttcccaacaatgtaatagTTGTCAGATGCTGGATTTCATTGCTTTGCACCTGACTGGATAGGATTCGGATTCAGTGACAAACCGCAGCCTGGATACGGTTTTAATTACACAG
                                        || |||      || | |   | ||    | ||  |||| | ||   ||| || ||      ||  |   || | || |   |||||  |  |  || ||||||| ||||| || || || ||||||||||| |||||||||||||| || |||||||||||||| || || ||||| ||||||||||||||||
--------------------------------------gtcatttgacctacattacatgttttt-cagtatcttatgattaatac-tatttaaattttctgtggttattatttattttaatttccctcctcttaaacagTTGTCGGATGCCGGGTTCCACTGCTTTGCACCAGACTGGATAGGATTTGGTTTCAGTGACAAACCACAACCAGGATATGGTTTTAATTACACAG

upper sequence: AT1G52510.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv09s0002g07500.t01 (Vitis vinifera), 3'ss of exon 3
gtgctacactgaatcttgaatcatgtgtctatatgggaaacaattgtttctaatgaaagactcttatgatttccaatgaatcatgtgtatgtatatgaagcttgagtggatcttttgtgtgttcccaacaatgtaatagTTGTCAGATGCTGGATTTCATTGCTTTGCACCTGACTGGATAGGATTCGGATTCAGTGACAAACCGCAGCCTGGATACGGTTTTAATTACACAG
                         |     ||||   ||    | |  |||         |  | |  |     || |||  |   ||    | |      | | |  | || || ||| |||   |       |||| ||||||||| ||| ||||| || ||||||||||| |||||||| || || |||||||| || ||  |  | ||||| || ||| | |||||||
-------------------gatgcctactagtatgcataatggatttaccta--------tttctgttgtcctttattaattgttgctaccattgt-----ctaaataaaactgttttgttttcttga-------atagATGTCAGATGTTGGGTTTCACTGTTTTGCACCTGATTGGATAGGCTTTGGTTTCAGTGAGAAGCCATATTCAGGATATGGATTTGACTACACAG

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|125310480|gb|EL324565.1|EL324565
EST:     AACTGTCATGTCTGAG                         TTGTCAGATGCTGGATTTCATTGCTTTTGCACCTGACTGGATAGGATTCGG
genomic: AACTGTCATGTCTGAGgtgctacact ... aatgtaatagTTGTCAGATGCTGGATTTCATTGCTTT-GCACCTGACTGGATAGGATTCGG
EST: gi|124828722|gb|EH913558.1|EH913558
EST:     AACTGTCATGTCTGAG                         TTGTCAGATGCTGGATTTCATTGCTTTGCACCTGACTGGATAGGATTCGGA
genomic: AACTGTCATGTCTGAGgtgctacact ... aatgtaatagTTGTCAGATGCTGGATTTCATTGCTTTGCACCTGACTGGATAGGATTCGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtatgtatatgaagcttgagtggatcttttgtgtgttcccaacaatgtaatagTTGTCAGATGCTGGATTTCATTGCTTTGCACCTGACTGGATAGGATTCGGATTCAGTGACAAACCGCAGCCTGGATACGGTTTTAATTACACAG
                                             aatgtaata  TA-rich tract