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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttttgtttatcttcttgcattattataacccacgttaggtagattaaactatcatatctctagattcagtcttttttccctcagctttcaacattctgcttgatagttgcttggacagaatgtaatttagcttttggtgtttcttctgaaaatttggcatcaactcattatggaacagGTTCTTAGGCGCCATCAAGCAGTATCTGTGTCTCTCCTTGCTGAAGAACAGTGCTTCAAATCTTATGATCATTTTCCAGCTTTCCTGCTCGATTTTACTT

Basic information

species Arabidopsis thaliana
transcript AT1G01960.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G01960.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA03G02610.1 (Glycine max), 3'ss of exon 1
gtttgttttgtttatcttcttgcattattataacccacgttaggtagattaaactatcatatctctagattcagtcttttttccctcagctttcaacattctgcttgatagttgcttggacagaatgtaatttagcttttggtgtttcttctgaaaatttggcatcaactcattatggaacagGTTCTTAGGCGCCATC--AAGCAGTATCTGTGTCTCTCCTTGCTGAAGAACAGTGCTTCAAATCTTATGATCATTTTCCAGCTTTCCTGCTCGATTTTACTT
                                       || ||| |  |  |  | ||  | | |||   |  ||        || |  |||   | |  ||    | ||| ||||  ||    | | |||  | ||  | |||        |    ||  |||||      | |    || | | |   ||   ||   | |||| |  ||    | |  |  ||  |  |  || ||     || ||                                   
-------------------------------------aatttggttg--tggatgagcaggtttttaggcgccatcaagcagtacttatgtttatccttgttgaagaacagt-gcttcaactcttt-tgattgtgtttcagCTGTCATGCTCCA----TTTTCATCAGTCTGGTGT----CAAGATTTAGAGCTGGATTGAAGGCAGAAATTGGAGTTTTTTTCCCT--ATGATTGTTCTCAGGGTCCTAG----------------------------------

upper sequence: AT1G01960.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA18G45340.1 (Glycine max), 3'ss of exon 1
gtttgttttgtttatcttcttgcattattataacccacgttaggtagattaaactatcatatctctagattcagtcttttttccctcagctttcaacattctgcttgatagttgcttggacagaatgtaatttagcttttggtgtttcttctgaaaatttggcatcaactcattatggaacagGTTCTTAGGCGCCATCAAGCAGTATCTGTGTCTCTCCTTGCTGAAGAACAGTGCTTCAAATCTTATGATCATTTTCCAGCTTTCCTGCTCGATTTTACTT
                                                                             || |||| |     ||| | |  |  ||||| | |   |    || ||| |  |  || |        |  | ||||   ||    ||    |  |    || |||||| ||||| ||||||||||||||  | ||| | |||||| |||||||||||||||||| |||| ||||  | || ||||| || ||||| |||||  | 
-----------------------------------------------------------------------------ttcttcctttg---ttctatacaccacttgacactatttacttcataatttt-tccagatgacaaaaatagtactgatggttaa--atttggttgtggatgagcagGTTTTTAGGTGCCATCAAGCAGTACTTATGTTTATCCTTGTTGAAGAACAGTGCTTCAACTCTTTTGATTGTGTTTCAGCTGTCATGCTCCATTTTTATC

upper sequence: AT1G01960.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA01G34560.1 (Glycine max), 3'ss of exon 1
gtttgttttgtttatcttcttgcattattataacccacgttaggtagattaaactatcatatctctagattcagtcttttttccctcagctttcaacattctgcttgatagttgcttggacagaatgtaatttagcttttggtgtttcttctgaaaatttggcatcaactcattatggaacagGTTCTTAGGCGCCATCAAGCAGTATCTGTGTCTCTCCTTGCTGAAGAACAGTGCTTCAAATCTTATGATCATTTTCCAGCTTTCCTGCTCGATTTTACTT
                                                                             || |||| |     ||| | |  |  ||||| | |   |    || ||| |     || |        |  | ||||   ||    ||    |  |    || |||||| ||||| ||||||||||||||  | ||| | |||||| |||||||||| ||||||| |||| ||||  | || ||||| || ||||| |||||  | 
-----------------------------------------------------------------------------ttcttcctttg---ttctatacaccacttgacactatttacttcataattttgcc-agatgacaaaaatagtactgatggttaa--atttggttgtggatgagcagGTTTTTAGGTGCCATCAAGCAGTACTTATGTTTATCCTTGTTGAAGAACAGCGCTTCAACTCTTTTGATTGTGTTTCAGCTGTCATGCTCCATTTTTATC

upper sequence: AT1G01960.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 1
gtttgttttgtttatcttcttgcattattataacccacgttaggtagattaaactatcatatctctagattcagtcttttttccctcagctttcaacattctgcttgatagttgcttggacagaatgtaatttagcttttggtgtttcttctgaaaatttggcatcaactcattatggaacagGTTCTTAGGCGCCATCAAGCAGTATCTGTGTCTCTCCTTGCTGAAGAACAGTGCTTCAAATCTTATGATCATTTTCCAGCTTTCCTGCTCGATTTTACTT
                                                              || || ||    || || ||   | || ||  ||   | |   |  || | |  |   || | | ||||        ||||    || ||| | ||          ||  |  |   |||| |||||||| ||||| ||||||||| ||||||| || ||| |||||||||| ||||| | |||||||||  ||||||||||||| ||||| |||||  ||
--------------------------------------------------------------ctttaaatgtgctccttatt--gttagtttagaattatttttctattaatggagtcctcaaattttaatca------tggt----ctcctggatat---------gctggtggtaacacagATTCTTAGGTGCCATTAAGCAGTATTTGTGTCTATCATTGTTGAAGAACAGCGCTTCGACTCTTATGATTGTTTTCCAGCTTTCTTGCTCCATTTTCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttagcttttggtgtttcttctgaaaatttggcatcaactcattatggaacagGTTCTTAGGCGCCATCAAGCAGTATCTGTGTCTCTCCTTGCTGAAGAACAGTGCTTCAAATCTTATGATCATTTTCCAGCTTTCCTGCTCGATTTTACTT
                       tgaaaattt  TA-rich tract