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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcccatctatcaatacattcttagtacagaccaatgaatctagatgctaaggttgtattattgttccttgactgtttgggttgcaaccaataacattgcagGTTATGGGAAACCATGTAGCTGTGACAGTTGGTGGGTCAAATGGTCATTTCGAATTGAATGTATTCAAGCCGGTGATCGCGAGTGCTCTTTTACAT

Basic information

species Arabidopsis thaliana
transcript AT2G47510.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: LOC_Os03g21950.1 (Oryza sativa), 3'ss of exon 12
gtaagtcccatctatcaatacattcttagtacagaccaatgaatctagatgctaaggttgtattattgttccttgactgtttggg--ttgcaaccaataaca----ttgcagGTTATGGGAAACCATGTAGCTGTGACAGTTGGTGGGTCAAATGGTCATTTCGAATTGAATGTATTCAAGCCGGTGATCGCGAGTGCTCT-TTTACAT
       || |   |  | | || |    |||   ||| ||||  | | || |    ||   ||  || |  |||   | ||||   || |||  |||        |||||||||||||| || ||||| | ||| ||||| ||||| || ||||| ||||| || |||||||| || |||||  |||| ||   ||   |  ||| | 
------tcctttcgttgaaatatgcaatttactt-ccactgaaatttg-tgat----ttacttttgtgctgattggaagattggaaattccaaataatggttgtttttgcagGTTATGGGTAATCATGTTGGTGTCACAGTAGGTGGTTCGAATGGACATTTTGAGTTGAATGTCTTTAAGCCAATGATTGCAGCTGGATTACTTAGA-

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA02G01930.1 (Glycine max), 3'ss of exon 12
------gtaagtcccatctatcaatacattcttagtacagaccaatgaatctagatgctaaggttgtattattgttccttgactgtttgg-gttgcaaccaataacattgcagGTTATGGGAAACCATGTAGCTGTGACAGTTGGTGGGTCAAATGGTCATTTCGAATTGAATGTATTCAAGCCGGTGATCGCGAGTGCTCTTTTACAT
       | | | |  | ||| || | |  ||||||   ||||| || |  |||     | | ||   | |  |    ||   |  |||| ||    |   |  | ||| ||||| |||||||||||||| ||  | ||||| ||||| |||||||||||||| ||  | ||||| ||||||||  |||| || | |  |||  | |||
gtagacatcacttcattttattaaaata--cttagttatgaccattgtagttagcaaaca-gtttccgtgacaggcaatttcttaattggtgtcatgattcacga-atttcagGTCATGGGAAACCATGTTGCAATCACAGTGGGTGGATCAAATGGTCATTTTGAGCTCAATGTGTTCAAGCCAATGATTGCCAATTGTCTCCTGCAT

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA10G02040.1 (Glycine max), 3'ss of exon 12
---------------------------------------------------gtaagtcccatctatcaatacattcttagtacagaccaatgaatctagatgctaaggttgtatt-attgttccttgactgtttgg-gttgcaaccaataacattgcagGTTATGGGAAACCATGTAGCTGTGACAGTTGGTGGGTCAAATGGTCATTTCGAATTGAATGTATTCAAGCCGGTGATCGCGAGTGCTCTTTTACAT
                                                      | | |    |  |||    ||  ||  ||     |   ||||   ||   ||  || |  | | ||    ||      |||| ||    |   ||   ||| ||||| || ||||||||||| || || ||||| ||||| |||||||||||||| ||  | ||||| ||||||||  |||| || |||  |||  | |||
gtagacatcaattcacctcattttattaaaatactttaatgttatgacttatggaatactgattggcaaacagtttctatgacttgtaataaaatcacaatttgaattttatggtgactggaaatttctgaattggtgtcatgattcatt-tatttcagGTCATTGGAAACCATGTTGCAGTTACAGTGGGTGGATCAAATGGTCATTTTGAGCTTAATGTGTTCAAGCCAATGATTGCCAGTTGTCTCCTGCAT

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 12
----------------------------------------------------gtaagtcccatctatcaatacattcttagtacagaccaatgaatctagatgctaaggttgtattattgttccttg-actgtttgggttgcaaccaataacattgcagGTTATGGGAAACCATGTAGCTGTGACAGTTGGTGGGTCAAATGGTCATTTCGAATTGAATGTATTCAAGCCGGTGATCGCGAGTGCTCTTTTACAT
                                                    | ||  |  ||     || ||| | |   |       ||| ||   | |      |    | |||| ||  || | | | | ||  |||    ||  ||  || ||||| || ||||||||||| || || ||||| ||||| |||||||||||||| ||  | ||||| ||||||||  |||| || |||  |||  | |||
gtagacatcaattcacttcattttattaaaatactttaatgttatgacttatgaaatactgattggcaaacacagtttctatgacttgtaataaaatcacacatattga--attttatggtgactgggaatttctgaattggtgtcatgaa--tttcagGTCATAGGAAACCATGTTGCAGTTACAGTGGGTGGATCAAATGGTCATTTTGAGCTTAATGTGTTCAAGCCAATGATTGCCAGTTGTCTCCTGCAT

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv14s0060g01700.t01 (Vitis vinifera), 3'ss of exon 10
gtaagtcccatctatcaatacattcttagtacagaccaatgaatctagatgctaaggttgtattattgttccttgactgtttgggttgcaaccaataacattgcagGTTATGGGAAACCATGTAGCTGTGACAGTTGGTGGGTCAAATGGTCATTTCGAATTGAATGTATTCAAGCCGGTGATCGCGAGTGCTCTTTTACAT
   |  |   | | |   |  ||    |||||   | | |   | ||      |   || |   |||||      | |  ||||      |   |   | ||||||||||||||||||||||| ||  | ||||| ||||| |||||||||||||| ||  | ||||||| ||||||| |||| || || |  || |||| |
---atacttttgttttgttgtataacaagtactttctagttggtgtaagcatca---ttatggaattgtcatactaatacttggtcaaacaaggagttctttgcagGTTATGGGAAACCATGTGGCCATTACAGTGGGTGGATCAAATGGTCATTTTGAGCTCAATGTATACAAGCCGCTGATTGCTAGCGGCCTCTTACGT

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 13
gtaagtcccatctatcaatacattcttagtacagaccaatgaatctagatgctaaggttgtattattgttccttgactgtttgggttgcaaccaataacattgcagGTTATGGGAAACCATGTAGCTGTGACAGTTGGTGGGTCAAATGGTCATTTCGAATTGAATGTATTCAAGCCGGTGATCGCGAGTGCTCTTTTACAT
 | | |   | || |   |    | | | |  | |   ||   |  | |   | || || || | | ||||   |||   |     |       ||||  ||||||||||||||||| || || ||  | || || ||||| ||||| |||||||| ||  ||||||||||||||||  |||| || |||| |||  ||| |
-ttattagaacctttttttgtggt-tgactttatatttatttgttcaaaaaattagcttctaatctggttc---gaccaatcaaaat-ttttgtataatcttgcagGTTATGGGAAATCACGTGGCCATTACTGTAGGTGGATCAAACGGTCATTTTGAGCTGAATGTATTCAAGCCTCTGATTGCTAGTGGTCTCCTACGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaaggttgtattattgttccttgactgtttgggttgcaaccaataacattgcagGTTATGGGAAACCATGTAGCTGTGACAGTTGGTGGGTCAAATGGTCATTTCGAATTGAATGTATTCAAGCCGGTGATCGCGAGTGCTCTTTTACAT
                                         caataac  putative branch site (score: 2)
      ttgtattatt  TA-rich tract