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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttaaacatcggttttgatttggatctccagccatcctgggaccacatacagcttataaattactccttctttaatttacagATTTTCAGAATCCTTGGTACTCCCAATGAATCTATTTGGCCTGGGTTCTCTAAACTACCTGGAGTCAAGGTCAACTTTGTCAAGCATCA

Basic information

species Arabidopsis thaliana
transcript AT1G67580.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G67580.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G10810.1 (Glycine max), 3'ss of exon 2
----------------------------------gtattttaaacatcggttttgatttggatctccagccatcctggg----accacatacagcttata-------aattactcc-ttctttaatttacagATTTTCAGAATCCTTGGTACTCCCAATGAATCTATTTGGCCTGGGTTCTCTAAACTACCTGGAGTCAAGGTCAACTTTGTCAAGCATCA
                                   |  | | |   |    |||  |||  | ||   |   || || |    |||| ||   | || |        | | ||| | || ||  | ||  |||||||| | || ||||| || || |||||| | ||||||||||||||||| ||| ||||||||||||||||||| |||||||| || ||
gtatgtgtaatttttttttaatttttgataattcttgctatcatatttctctttccttttaaccttttggtgtcttgtgcttaaccagatggtggttgttttaccctattgacttcgttattctacttgtagATTTTCCGGATTCTTGGCACACCAAATGAAACAATTTGGCCTGGGTTCTCCAAATTACCTGGAGTCAAGGTCAATTTTGTCAAACACCA

upper sequence: AT1G67580.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA05G27820.1 (Glycine max), 3'ss of exon 5
------------------------gtattttaaacatcggttttgatttggatctccagccatcctgg---gaccacatacagcttata-------aattactccttctttaatttacagATTTTCAGAATCCTTGGTACTCCCAATGAATCTATTTGGCCTGGGTTCTCTAAACTACCTGGAGTCAAGGTCAACTTTGTCAAGCATCA
                         |  || | |  ||  |||   |||    ||   |      | |    ||||| |   | || |        | | ||   || ||  | ||  |||||||| | || ||||| || || |||||| | ||||||||||||||||| ||| ||||||||||||||||||| |||||||| || ||
gtatgtgtaatgtttggtacattcttgcttcatatttctctttccttttaaccctttggtgtcttttgcttaaccacttggtggttgttttacactattgacctgttattctacttgtagATTTTCCGGATTCTTGGCACACCAAATGAAACAATTTGGCCTGGGTTCTCCAAATTACCTGGAGTCAAGGTCAATTTTGTCAAACACCA

upper sequence: AT1G67580.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA18G01230.1 (Glycine max), 3'ss of exon 5
gtattttaaacatcggttttgatttggatctccagccatcctgggaccacatacagcttataaattactccttctttaatttacagATTTTCAGAATCCTTGGTACTCCCAATGAATCTATTTGGCCTGGGTTCTCTAAACTACCTGGAGTCAAGGTCAACTTTGTCAAGCATCA
                                                 | ||  || ||| ||  | |  ||  || | || |||||||||||||| ||||| || || |||||| | |||||||||||||||||  || ||||  ||||||||||||| ||||||||| || |
---------------------------------------------gtggcgta-ggcctattaac-atttattaatttacttgcagattttcagAATTCTTGGCACACCAAATGAAACAATTTGGCCTGGGTTCTCAGAATTACCCTGAGTCAAGGTCAATTTTGTCAAGAATAA

upper sequence: AT1G67580.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA11G37270.1 (Glycine max), 3'ss of exon 2
--------------------------gtattt--taaacatcggttttgatttggatctccagccatcctgggacc--acatacagctta--taaatt---actccttctttaatttacagATTTTCAGAATCCTTGGTACTCCCAATGAATCTATTTGGCCTGGGTTCTCTAAACTACCTGGAGTCAAGGTCAACTTTGTCAAGCATCA
                          ||| |   |||      | | | | || | |||     |||  || | |    ||    || ||  |  |||   | |  ||  || | || |||||||||||||| ||||| || || |||||| | |||||||||||||||||  || ||||   |||||||||||| ||||||||| || |
gtatgcattaacgccattttagacttgtagtggataagttcttgctctcactttggtctttcatcattttgtgcctcttcaagtggcgtaggtctattaacatttattaatttacttgcagATTTTCAGAATTCTTGGCACACCAAATGAAACAATTTGGCCTGGGTTCTCAGAATTACCCCAAGTCAAGGTCAATTTTGTCAAGAATAA

upper sequence: AT1G67580.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv01s0010g02550.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------------------------------gtattttaaacatcggttttgatttggatctccagccatcctgggaccacatacagcttataaattactccttctttaatttacagATTTTCAGAATCCTTGGTACTCCCAATGAATCTATTTGGCCTGGGTTCTCTAAACTACCTGGAGTCAAGGTCAACTTTGTCAAGCATCA
                                                       |  |    ||  | ||  | ||| || |   |  ||     |   | || ||  || |  || |    |   |    || |||||||| |||| |||||| || || | |||  | |||||||||||||| || ||| | |||||||||||||| ||||| |||||||||||
gtaacttaactagttagcttctgcttgtgatacattaccattattgctgcccccctactgcctatatgattctacttg-atatatggtgatttccagttta-attca--ttctgtatgaggaatatctatgattgcagATTTTTAGAACCCTTGGCACACCAAGTGAGACAATTTGGCCTGGGTTTTCCAAATTGCCTGGAGTCAAGGTTAACTTCGTCAAGCATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccagccatcctgggaccacatacagcttataaattactccttctttaatttacagATTTTCAGAATCCTTGGTACTCCCAATGAATCTATTTGGCCTGGGTTCTCTAAACTACCTGGAGTCAAGGTCAACTTTGTCAAGCATCA
                                          ctttaat  putative branch site (score: 4)
                                    ctccttctttaattt  CT-rich tract
                                        ttctttaatttaca  TA-rich tract