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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatcattggttttttctccaagattcatatggttgagattaagttgcacgttctgtttgttattgtatttacagGGAGAATTACTCCAGAGAGTGTAATATACAGCTTTGGCACTCTTCTGCTTGATCTTCTCAGCGGAAAACATATACCTCCTAGCCAT

Basic information

species Arabidopsis thaliana
transcript AT4G00710.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G00710.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA03G01300.2 (Glycine max), 3'ss of exon 6
----------------------------------------------------------------------------gtacatcattggttttttctccaagattcatatggt--tgagattaagttgcacgt-------tctgtttgttattgtatttacagGGAGAATTACTCCAGAGAGTGTAATATACAGCTTTGGCACTCTTCTGCTTGATCTTCTCAGCGGAAAACATATACCTCCTAGCCAT
                                                                            |||   ||||      ||  | |  ||| || |  |  |    |  |||   || |       | | | | || ||   |||  ||||||| | || ||||| ||||||||||| || |||||||||||||||||||| |||||||| || || ||||| || || || |||
gtatgccttataacagtttttgttagttttttccttctggcttatgttcaacactataatattcaattgaaaatctgtatcgcatttaaaaatttacaatcatttatgttttagtagagtggagtgatacatgatttcttatatctcttctttgttttgtagGGAGAGTAACACCAGAAAGTGTAATATATAGTTTTGGCACTCTTCTGCTTGACCTTCTCAGTGGGAAGCATATCCCCCCAAGTCAT

upper sequence: AT4G00710.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA07G07850.2 (Glycine max), 3'ss of exon 6
----------------------------------------------------------------------------gtacatcattggttttttctccaag-attcatatggt--tgagattaagttgcacgt-----tctgtttgttattgtatt--tacagGGAGAATTACTCCAGAGAGTGTAATATACAGCTTTGGCACTCTTCTGCTTGATCTTCTCAGCGGAAAACATATACCTCCTAGCCAT
                                                                            |||   ||||    |||| | |||  ||| || |  |  |    |  |||   || |       | ||| |  |||| ||  |  ||||||| | || ||||| ||||||||||| |||||||| || ||| ||||||| |||||||| || || ||||| || || || |||
gtatgccatataacagattttttgttagttttgtccttctttcttatgttcaacactaatattcaattgaaaatctgtattgcatttaaattttttacaatcatttatgttttagtagagtggagtgatacatggtttcttatttctctttgtttttttgtagGGAGAGTGACACCAGAAAGTGTAATATATAGCTTTGGAACCCTTTTGCTTGACCTTCTCAGTGGGAAGCATATCCCCCCAAGTCAT

upper sequence: AT4G00710.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 6
------------------------gtacatcattggttttttctccaagattcatatggttgagattaagttgcacgt--tctgtttgttattgtatttacagGGAGAATTACTCCAGAGAGTGTAATATACAGCTTTGGCACTCTTCTGCTTGATCTTCTCAGCGGAAAACATATACCTCCTAGCCAT
                         || |  || ||  |  | |     |||  | |  |  | | ||| ||   | |  | || ||||| |||| | || ||| ||| | || ||||| ||||||||||| ||||| ||||||||| ||||||| || ||||| ||||| ||||| ||||| ||||||
gatttgatgtagagtctgtatcagatataatataggaataatatatggtattt-tgtaatcta-actaatttttgcttcatatgcttgtttttgt-tctatagGAAGAGTAACACCAGAAAGTGTAATATATAGCTTCGGCACTCTTTTGCTTGACCTGCTCAGTGGAAAGCATATCCCTCCCAGCCAT

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|124855826|gb|EH940263.1|EH940263
EST:     TAATCTTGCTTTCACCCCTCCTGAATATCTACGAACTG                         GGAGAATTACTCCAGAGAGTGTAATATACAGCTTTGGCACTCT
genomic: TAATCTTGCTTTCACCCCTCCTGAATATCTACGAACTGgtacatcatt ... gtatttacagGGAGAATTACTCCAGAGAGTGTAATATACAGCTTTGGCACTCT
EST: gi|47831461|gb|CK121145.1|CK121145
EST:     AAGTTACAGCACTAATCTTGCTTTCACCCCTCCTGAATATCTACGAACTG                         GGAGAATTACTCCAGAGAGTGTAATATACAGCTTTGGCACTCTTCTGCTTG
genomic: AAGTTACAGCACTAATCTTGCTTTCACCCCTCCTGAATATCTACGAACTGgtacatcatt ... gtatttacagGGAGAATTACTCCAGAGAGTGTAATATACAGCTTTGGCACTCTTCTGCTTG
EST: gi|47831462|gb|CK121146.1|CK121146
EST:     AAGTTACAGCACTAATCTTGCTTTCACCCCTCCTGAATATCTACGAACTG                         GGAGAATTACTCCAGAGAGTGTAATATACAGCTTTGGCACTCTTCTGCTTG
genomic: AAGTTACAGCACTAATCTTGCTTTCACCCCTCCTGAATATCTACGAACTGgtacatcatt ... gtatttacagGGAGAATTACTCCAGAGAGTGTAATATACAGCTTTGGCACTCTTCTGCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagattcatatggttgagattaagttgcacgttctgtttgttattgtatttacagGGAGAATTACTCCAGAGAGTGTAATATACAGCTTTGGCACTCTTCTGCTTGATCTTCTCAGCGGAAAACATATACCTCCTAGCCAT
                                    tttgttattgtattta  TA-rich tract