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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggatctaatctatagggattatttttttctttctttaacatgcactatgtccttatggtttaccatgtctttatatagTGGCCCAAGATGTGGTCTTGGTGAACTTGTACTACCTGAAAATGAGCCAGGAAGCAGTATCATGCCT

Basic information

species Arabidopsis thaliana
transcript AT2G47510.1
intron # 11
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 11
lower sequence: LOC_Os03g21950.1 (Oryza sativa), 3'ss of exon 10
---------gtatggatctaatctatagggattatt--tttttctttctttaacatgcactatgtccttatggtttaccatgtctttatatagTGGCCCAAGATGTGGTCTTGGTGAACTTGTACTACCTGAAAATGAGCCAGGAAGCAGTATCATGCCT
           |    | ||  || | | ||  |    | ||||| | ||   |  |    || |  | |   | |   || |  | | |  | |||||  ||||||| |||||||||||| | ||||||||||||||||| || ||||| || ||||||
gttagtattccagtcttttagccttttgagagcacaaatatttctctattcttctggggagatatagtcaatatatctaatatgatcaca--gCGGCCCCCGATGTGGACTTGGTGAACTTATCCTACCTGAAAATGAGCCTGGGAGCAGCATTATGCCT

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GRMZM2G010823_T01 (Zea mays), 3'ss of exon 10
---------gtatggatctaatctatagggattatttttttctttctttaacatgcactatgtccttatggtttaccatgtctttatatagTGGCCCAAGATGTGGTCTTGGTGAACTTGTACTACCTGAAAATGAGCCAGGAAGCAGTATCATGCCT
           |    |||| | | ||     |||  |||||| |      |  |    |||  || |   ||| | |     | |||  |||| ||  | |||||||||||||||||  | ||||| ||||||||||| || ||||| || ||||||
gtcgttattccaatcttctattttttataacatatgattttctctagcattctgggggcatgcactaaatatttccaacacaatcata--gTGGTCCTCGGTGTGGTCTTGGTGAACTAATCCTACCAGAAAATGAGCCTGGGAGCAGCATTATGCCT

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA10G02040.1 (Glycine max), 3'ss of exon 10
--------------gtatggatctaatctatagggattatttttttct-ttctttaacatgcactatgtccttatgg-------tttaccatgtctttatatagTGGCCCAAGATGTGGTCTTGGTGAACTTGTACTACCTGAAAATGAGCCAGGAAGCAGTATCATGCCT
               ||||   |  ||  |   | |||  ||| |  | |||  ||| |     | | |  | || |       ||||   | || |  |||||||| ||| | || ||||||||||||||  | || |||||||| || |||||||| ||||||||||||
gtaggttgctaattatatgacaccgattgac--gaattgctttctaatgttcaataaaaaattatttatattcattggttttcttttatactatcctattatagTGGTCCACGCTGCGGTCTTGGTGAACTCATTCTTCCTGAAAACGAACCAGGAAGTAGTATCATGCCT

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 10
--------------gtatggatctaatctatagggattatttttttctttctttaacatgcact-atgtccttatggtttacca----tgtctttatatagTGGCCCAAGATGTGGTCTTGGTGAACTTGTACTACCTGAAAATGAGCCAGGAAGCAGTATCATGCCT
               ||||   |  ||  |      |  ||||  | ||   |  | |   | | || | | |  | |||   |    | || |  |||||||| ||| | || ||||||||||||||  | || |||||||| || ||||| |||||||||||||||
gtaggttgctagttatatgacaccgattgacgaatttctttttcatgttcaatagaaaattatttatattcatgggttttcttaatactatcctattatagTGGTCCACGCTGCGGTCTTGGTGAACTCATTCTTCCTGAAAACGAACCAGGGAGCAGTATCATGCCT

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv14s0060g01700.t01 (Vitis vinifera), 3'ss of exon 8
gtatggatctaatctatagggattatttttttctttctttaacatgcactatgtccttatggtttaccatgtctttat---atagTGGCCCAAGATGTGGTCTTGGTGAACTTGTACTACCTGAAAATGAGCCAGGAAGCAGTATCATGCCT
||| |  |   |  | ||   | || | |||  ||| | |    || | ||  | |    |||| |  |||  ||| |    ||| |||||| | ||||| ||||||||||||  ||| ||||| ||||| ||||| |||||||||||||||
gtaagtgtgatagttttattcactactgtttcttttgtgtt---tgta-taaattcaggaggttcataatgcttttgttacgtagCGGCCCACGCTGTGGCCTTGGTGAACTTACACTTCCTGATAATGAACCAGGCAGCAGTATCATGCCT

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 11
gtatggat-ctaatctatagggattatttttttctttctttaacatgcactatgtccttatggtttaccatgtctttatatagTGGCCCAAGATGTGGTCTTGGTGAACTTGTACTACCTGAAAATGAGCCAGGAAGCAGTATCATGCCT
||||| || ||| |      |  |||   |||   |  |||  | |    | |||  | ||   |   | | || ||    ||||| ||| | ||||| |||||||||||  | || |||||||| |||||||| |||||||| ||||||
gtatgtatgctagttggatagccttacagtttctatcgttttgctttatttttgtggtcatcactctgcttttccttgctcagTGGTCCACGTTGTGGCCTTGGTGAACTCATTCTTCCTGAAAACGAGCCAGGCAGCAGTATTATGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttctttctttaacatgcactatgtccttatggtttaccatgtctttatatagTGGCCCAAGATGTGGTCTTGGTGAACTTGTACTACCTGAAAATGAGCCAGGAAGCAGTATCATGCCT
         ctttaac  putative branch site (score: 3)
                                          tgtcttt  putative PPT
                                            tctttatata  TA-rich tract