Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggccaaaggcatatccttatatgcttttttttctttcaatctcgatgactatagtttgacgcttcttaaattctaaaaaaaaaaatagtttgacgtttctaagacttttcttaacaaatatccacttactgggatgattggctgagACTAAAGGAAAACCATAAAGGCCGCCAATTCATTCGACCGGAAGTCTGTAGAACATACAATTTTGGTGAACAT

Basic information

species Arabidopsis thaliana
transcript AT4G38240.3
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


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

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

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

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

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


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacgtttctaagacttttcttaacaaatatccacttactgggatgattggctgagACTAAAGGAAAACCATAAAGGCCGCCAATTCATTCGACCGGAAGTCTGTAGAACATACAATTTTGGTGAACAT
                               cacttac  putative branch site (score: 2)
              ttttcttaacaaatat  TA-rich tract