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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

atatccttatatgcttttttttctttcaatctcgatgactatagtttgacgcttcttaaattctaaaaaaaaaaatagtttgacgtttctaagacttttcttaacaaatatccacTTACTGGGATGATTGGCTGAGACTAAAGGAAAACCATAAAGGCCGCCAATTCATTCGACCGGAAGTCTGTAGAACATACAATTTTGGTGAACAT

Basic information

species Arabidopsis thaliana
transcript AT4G38240.2
intron # 13
splice site 3'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G38240.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: LOC_Os02g58590.1 (Oryza sativa), 3'ss of exon 13
atatccttatatgcttttttttctttcaatctcgatgactatagtttgacgcttcttaaattctaaaaaaaaaaatagtttgacgtttctaagact-tttcttaacaaatatccacTTACTGGGATGATTGGCTGAGACTAAAGGAAAACCATAAAGGCCGCCAATTCATTCGACCGGAAGTCTGTAGAACATACAATTTTGGTGAACAT
                            || ||  | ||| | |  |     || ||| |||   | | | || ||  |    |     ||    | || ||||||||   |  ||||| |||||||| ||| |||| ||||| ||    || | || ||| ||||| ||||| ||||||||||| ||||||||||||||||| ||||||
----------------------------atatcttt-actgttgcctactaatttttatattagcatatacaatattttccatctaccatatatttcttccttaacaagactttacTTATTGGGATGACTGGGTGAGGCTAAAAGAGGTACACAGAGACCGGCAATTTATTCGCCCGGAAGTCTGCAGAACATACAATTTTGGCGAACAT

upper sequence: AT4G38240.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G426275_T04 (Zea mays), 3'ss of exon 13
atatccttatatgcttttttttctttcaatctcgatgactatagtttgacgcttcttaaattctaaaaaaaaaaatagtttgacgtttctaagacttttcttaacaaatatccacTTACTGGGATGATTGGCTGAGACTAAAGGAAAACCATAAAGGCCGCCAATTCATTCGACCGGAAGTCTGTAGAACATACAATTTTGGTGAACAT
                |   | || ||  ||     |    | |   |||      | | |    |  |||  || |        ||    ||   || ||| ||||   |  ||||| |||||||||||| |||| ||||||||    |||  |   || |||||||| || |||||| | ||||||||||||||||||||  | || 
--------gcgcctggtcggtcctgtcggtcgactagctggtcgcccgacttgaaatcagtgtacatgaaaccaacaagcactttttatctagttcttccttgacaagATTTTACTTATTGGGATGATTGGGTGAGGCTAAAGGAGGTACATGGACATCGGCAATTCATACGCCCGGAAATTTGTAGAACATACAATTTTGGCAAGCA-

upper sequence: AT4G38240.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G426275_T01 (Zea mays), 3'ss of exon 13
atatccttatatgcttttttttctttcaatctcgatgactatagtttgacgcttcttaaattctaaaaaaaaaaatagtttgacgtttctaagacttttcttaacaaatatccacTTACTGGGATGATTGGCTGAGACTAAAGGAAAACCATAAAGGCCGCCAATTCATTCGACCGGAAGTCTGTAGAACATACAATTTTGGTGAACAT
                |   | || ||  ||     |    | |   |||      | | |    |  |||  || |        ||    ||   || ||| ||||   |  ||||| |||||||||||| |||| ||||||||    |||  |   || |||||||| || |||||| | ||||||||||||||||||||  | |||
---------------gtcggtcctgtcggtcgactagctggtcgcccgacttgaaatcagtgtacatgaaaccaacaagcactttttatctagttcttccttgacaagattttacTTATTGGGATGATTGGGTGAGGCTAAAGGAGGTACATGGACATCGGCAATTCATACGCCCGGAAATTTGTAGAACATACAATTTTGGCAAGCAT

upper sequence: AT4G38240.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA04G00200.1 (Glycine max), 3'ss of exon 13
atatccttatatgcttttttttctttcaatctcgatgactatagtttgacgcttcttaaattctaaaaaaaaaaatagtttgacgtttctaagacttttcttaacaaatatccacTTACTGGGATGATTGGCTGAGACTAAAGGAAAACCATAAAGGCCGCCAATTCATTCGACCGGAAGTCTGTAGAACATACAATTTTGGTGAACAT
             |    || |  |   || || ||   ||   || | |  |  |||| |||     |  ||||| || |   ||   |||   |||  || |||||  | ||||||||||||||| ||| ||||||| || || || |||||||| || || || || || || ||||| || |||||||| ||||||||||| |||
----------gaccagggttcttataagatttccatatttaagattcgcccttgtttaatttc-----agtaaaattgtattttgtacgtaaatttttctttgacaaaatttcacTTACTGGGATGACTGGTTGAGACTTAAAGAGAATCATAAAGGACGACAGTTTATCCGGCCCGAAGTATGCAGAACATATAATTTTGGTGAGCAT

upper sequence: AT4G38240.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA06G00230.1 (Glycine max), 3'ss of exon 13
atatccttatatgcttttttttctttcaatctcgatgactatagtttgacgcttcttaaattctaaaaaaaaaaatagtttgacgtttctaagacttttcttaacaaatatccacTTACTGGGATGATTGGCTGAGACTAAAGGAAAACCATAAAGGCCGCCAATTCATTCGACCGGAAGTCTGTAGAACATACAATTTTGGTGAACAT
     ||   | |||| || |       || ||  |   ||   |||  |  |  |||| ||||  | ||  | ||        ||   |||   |||  || |||||  | ||||||||||||||| ||| ||||||| || || || || ||||| || || || || || || ||||| || |||||||| ||||||||||| |||
-----ctcccaagcttcttataa----gatttccttatttaggatttacccatgtttaatttctgtagaattatatt------tgtacataaatttttctttgacaaaatttcacTTACTGGGATGACTGGTTGAGACTTAAAGAGAATCACAAAGGACGACAGTTTATCCGGCCCGAAGTATGCAGAACATATAATTTTGGTGAGCAT

upper sequence: AT4G38240.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv00s0585g00030.t01 (Vitis vinifera), 3'ss of exon 13
atatccttatatgcttttttttctttcaatctcgatgactatagtttgacgcttcttaaattctaaaaaaaaaaatagtttgacgtttcta-agacttttcttaacaaatatccacTTACTGGGATGATTGGCTGAGACTAAAGGAAAACCATAAAGGCCGCCAATTCATTCGACCGGAAGTCTGTAGAACATACAATTTTGGTGAACAT
                                       | ||  || |   ||  |  || |||| |||||| |   ||      | ||| | | |||  || |||||  | ||||||||||||||||||| ||||  |||| || || || ||||| || || || ||||| || ||||| || |||||||| ||||||||||| |||
--------------------------------------gtctaaattaattttttgtgcat-ctaataaaaaatagttttaattagtcctacaaattttctttgacaaaacttcacttactgggatgattggttgagGTTAAAAGAGAATCACAAAGGTCGGCAGTTTATTCGTCCAGAAGTATGCAGAACATATAATTTTGGTGAGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctaaaaaaaaaaatagtttgacgtttctaagacttttcttaacaaatatccacTTACTGGGATGATTGGCTGAGACTAAAGGAAAACCATAAAGGCCGCCAATTCATTCGACCGGAAGTCTGTAGAACATACAATTTTGGTGAACAT
 tttcttaac  putative branch site 
     aaaaaaaaaatagttt  TA-rich tract