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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttaaatacctctttagctcctttttctttttttgaatataagggtggatccaccgtatcaagaaaaattagattttgtattcttctgatgaatttccatctctgctgaacagGTTTTCAGCTGATATCAAACAGTTTTTGTGTTTGTCGTTGTTGAAGAACAGTGCTTCTACTCTTATGATTATCTTCCAGCTTTCTTGCTCTATTTTCATC

Basic information

species Arabidopsis thaliana
transcript AT3G60860.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA03G02610.1 (Glycine max), 3'ss of exon 1
gtatgttaaatacctctttagctcctttttc--tttttttgaatataagggtggatccaccgtatcaagaaaaattagattttgtattcttctgatgaatttccatctctgctgaacagGTTT--TCAG-CTGATATCAAACAGTTTTTGTGTTTG-TCGTTGTTGAAGAACAGTGCTTCTACTCTTATGATTATCTTCCAGCTTTCTTGCTCTATTTTCATC
     ||   |      | |||   |||||        |  |  |  |     | |   || | |  |  || | |     ||  | |||| ||||    || || || |  ||  |   |||  |||| ||| | ||||   | ||| | | | | | |  |    | |   | | || |   | ||||||| |  || ||  | || |             
---aatttggttgtggatgagcaggtttttaggcgccatcaagcagtacttatgtttatccttgttgaagaacagtg---cttcaactcttttgattgtgtttcagCTGTCATGCTCCATTTTCATCAGTCTGGTGTCAA---GATTTAGAGCTGGATTGAAGGCAGAAATTGGAGTTTTTTTCCCTATGATTGTTCTC-AGGGTCCTAG-------------

upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA18G45340.1 (Glycine max), 3'ss of exon 1
gtatgttaaatacctctttagctcctttttctttttttgaatataagggtggatccaccgtatcaagaaaaattagattttgtattcttctgatgaatttccatctctgctgaacagGTTTTCAGCTGATATCAAACAGTTTTTGTGTTTGTCGTTGTTGAAGAACAGTGCTTCTACTCTTATGATTATCTTCCAGCTTTCTTGCTCTATTTTCATC
          | | || || | ||  |   |   ||   | |||     |   | ||   | |    | |    | |  | |||  ||  || | || ||   |    | ||| |||||||| || ||  ||||| ||||  || ||||| || |||||||||||||||||||| |||||| ||||| | || ||||| || ||||| ||||| |||
----------ttcttcctttgttctatacaccacttgacactat-----ttacttcataatttttccagatgacaaaaatagta--ctgatggttaaatttggttgtggatgagcagGTTTTTAGGTGCCATCAAGCAGTACTTATGTTTATCCTTGTTGAAGAACAGTGCTTCAACTCTTTTGATTGTGTTTCAGCTGTCATGCTCCATTTTTATC

upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 1
gtatgttaaatacctctttagctcctttttctttttttgaatataagggtggatccaccgtatcaagaaaaattagattttg-tattcttctgatgaatttccatctctgctgaacagGTTTTCAGCTGATATCAAACAGTTTTTGTGTTTGTCGTTGTTGAAGAACAGTGCTTCTACTCTTATGATTATCTTCCAGCTTTCTTGCTCTATTTTCATC
               |||||  |  |  | ||| || | | | | ||  |   |   |  |     ||    | | |||||  |  |  |||  || || | | |    |    |||| || | || ||  || || |||| ||||||| | || |||||||||||||| ||||| |||||||||||| | ||||||||||||||||| |||||||| 
---------------ctttaaatg-tgctccttattgttagt-ttagaattatttttctattaatggagtcctcaaattttaatcatggtctcctggatatgc-tggtggtaacacagATTCTTAGGTGCCATTAAGCAGTATTTGTGTCTATCATTGTTGAAGAACAGCGCTTCGACTCTTATGATTGTTTTCCAGCTTTCTTGCTCCATTTTCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaagaaaaattagattttgtattcttctgatgaatttccatctctgctgaacagGTTTTCAGCTGATATCAAACAGTTTTTGTGTTTGTCGTTGTTGAAGAACAGTGCTTCTACTCTTATGATTATCTTCCAGCTTTCTTGCTCTATTTTCATC
                         ttctgat  putative branch site (score: 3)
                                   tttccatctctgct  putative PPT
     aaaaattagattttgt  TA-rich tract