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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtcatttatcaccaagactgtgaaagcttaagttgcattagggtaacattctgtttaagtgctggtggactcactcttactaactctgtttcaatagGATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTTTTCTCAAAA

Basic information

species Arabidopsis thaliana
transcript AT1G73670.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA05G33980.1 (Glycine max), 3'ss of exon 3
---------------------------------------------------gtgagtcatttatcaccaagactgtgaaagcttaagttgc-attagggtaacattctgtttaagtgctggtggactcactcttactaactctgtttcaatagGATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTTTTCTCAAAA
                                                    |  | | |||||      || || ||||    || |||| ||   |||    ||||   |||   ||| ||  || |||  |  || ||   ||  |  |||| |||||||| ||||||||||||||||| |||||| | ||||| || ||||||||||||
gtgagtgcaccattgtgtgaccatgttgaacggttacatttatcaattatgttctgacttttatgcttttgagtgggaaattgcaaattgccatctaggt----ttctccctaaac-ctgttg--ctgacttattttatctactttgaataagGACTATGTTGCAACTCGGTGGTACCGTGCACCTGAATTATGTGGTTCTTTTTTCTCAAAA

upper sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G11470.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------gtgagtcatttatcaccaagactgtga--aagctta--agttgcattagggtaacattctgtttaagtgctggtggactcactcttactaactctgtttcaatagGATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTTTTCTCAAAA
                                                            | ||   |||| |    | | ||  |  ||  | |  | ||   ||   | | ||| ||  | ||    | |  |||| | | |||   ||||| || | | |||| |||||||| ||||||||||| ||||| |||||||| ||||| || ||||||||||||
gtaagtattctagcaaattgatgcacttattagttctgttttgcttctgcttttgtcttttaagatttttagc-tggaaagtgcaatcaaattcattatttctgttccagaatcatccttctaaatattttgctgactgatt-ttatctactctcttacta-agGACTATGTTGCAACTCGGTGGTATCGTGCACCTGAACTATGTGGTTCTTTTTTCTCAAAA

upper sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G05700.1 (Glycine max), 3'ss of exon 3
-------------------------------------gtgagtcatttatcaccaagactgtgaaagcttaagttgcattagggtaacattctgtttaagtgctgg-tggactcact-cttactaactctgtttc-----aata-gGATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTTTTCTCAAAA
                                      |   ||| ||||   |     | | |    || ||| | |    |  || |  |   |    | ||   |  ||    | || ||| | | | | |      |||| |||||||||||| ||||||||||| ||||| |||||| | ||||| || ||||||||||||
gtgagtgcaccattgtgtgaccatgttgaactgttacatttatcaattatgttctgacttttaagcttttgagtgggaaattgcaaatagccatctaggtttctccctaaacctgttgctgacttattttatctactatgaataagGATTATGTTGCAACTCGGTGGTATCGTGCACCTGAATTATGTGGTTCTTTTTTCTCAAAA

upper sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G30790.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------gtgag-tcatttatcaccaag-actgtgaaag-cttaagttgcattagggtaacattctgtttaagtgctggtggactcactcttactaactctgtttcaatagGATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTTTTCTCAAAA
                                                            | || |  | |      |||  |  | |||  ||| | ||   ||   | | ||||||  | ||    | |  |||| | | ||||   ||||   | |   ||| |||||||| ||||||||||| ||||| |||||||| ||||| || ||||||||||||
gtaagtattctagcaaattgatgcacttattatttctgttttgcttttgcttctgccttttaagattttctgctggaaagtgcaatcaaattctttatttctgttccagaatcattcttctaaacattttgctgactgatt-ttacctgctcttactaa---gGACTATGTTGCAACTCGGTGGTATCGTGCACCTGAACTTTGTGGTTCTTTTTTCTCAAAA

upper sequence: AT1G73670.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------gtgagtcatttatcaccaagactgtgaaagct--taagttgcattagggtaacattctgtttaagtgctggtggactc---actcttactaactctgttt----------caatagGATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTTTTCTCAAAA
                                ||   ||||| |    | | | | ||||  |  | |||  | ||    | |   |   || || |  | |    ||    ||| | |||||   | |||            | |||| |||||||| || || ||||||||||| |||||||| ||||| || |||||||| || 
gtatgtagtcttgccaaagtactcctgacatttgctgcatttctgcatacggccgagaaaattacttagtctcttttattttatgatactttaaaatttttgaaagctagaaactttaactaatcatatttatttactttttcaaagGACTATGTTGCAACCCGATGGTACCGTGCTCCTGAACTTTGTGGCTCCTTTTTCTCCAAG

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|86072907|gb|DR368664.1|DR368664
EST:     GTCTTGCTCGTGTGTCTTTTAATGATGCCCCTACCGCTATTTTTTGGACT                         GATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTT
genomic: GTCTAGCTCGTGTATCTTTTAATGATGCCCCTACCGCTATTTTTTGGACTgtgagtcatt ... gtttcaatagGATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTT
EST: gi|86072909|gb|DR368666.1|DR368666
EST:     GTCTTGCTCGTGTGTCTTTTAATGATGCCCCTACCGCTATTTTTTGGACT                         GATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTT
genomic: GTCTAGCTCGTGTATCTTTTAATGATGCCCCTACCGCTATTTTTTGGACTgtgagtcatt ... gtttcaatagGATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaacattctgtttaagtgctggtggactcactcttactaactctgtttcaatagGATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTTTTCTCAAAA
                                   tactaac  putative branch site (score: 0)
                                         ctctgtttc  CT-rich tract
                                              tttcaata  TA-rich tract