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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATTTATATGCCCTGTATCTATGCTGTCAACAAGATCGATTCAATCACACTTGAGGAACTTGAAATTTTGGACAAACTTCCTCATTACTGTCCTGTCAGgtaaatgttgttaaattaccggcaggatttgcgataaacttgtttacttttgccattaagatataaatttatttatcttgcag

Basic information

species Arabidopsis thaliana
transcript AT4G39520.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G39520.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G158021_T01 (Zea mays), 5'ss of exon 7
GGATTTATATGCCCTGTATCTATGCTGTCAACAAGATCGATTCAATCACACTTGAGGAACTTGAAATTTTGGACAAACTTCCTCATTACTGTCCTGTCAGgtaa--atgttgttaaattaccggcaggatttgcgataaacttg-tttacttttgccattaagatataa-atttattta-----tcttgcag--------------------------------------------------------------------
||||||| |  || ||  | |||| |||||||||||| |||   || ||||| ||||| || ||||| |||||||||||||| |||||||| || || |||| |  ||||  |  | |  || || | | |||  ||  ||||| ||| | ||      | | | |    |||||   |       ||||||                                                                    
GGATTTACACTCCTTGCGTATATGTTGTCAACAAGATTGATCAGATAACACTCGAGGAGCTGGAAATCTTGGACAAACTTCCCCATTACTGCCCGGTTAGgtgagcatgtactgtagtatcctgctgcaattg--attcacttgatttcccttaatagctgaaacacctcatttaaaaaaaaatcattgcagtgctctgctcatctagaacctgaacatgcttaggactaagaggctttgttgttgttgtattgttgcag

upper sequence: AT4G39520.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA04G39690.1 (Glycine max), 5'ss of exon 7
GGATTTATATGCCCTGTATCTATGCTGTCAACAAGATCGATTCAATCACACTTGAGGAACTTGAAATTTTGGACAAACTTCCTCATTACTGTCCTGTCAGgtaaatgttgttaaattaccggcaggat--ttgcgataaacttgtttacttttgccattaagatataaatttatttatcttgcag-----------------
|| | ||||| || |||||||||| ||| |||||||| |||   ||||||||||||||||| || || ||||| || || ||||||||||| ||  |||||||| |  | | |||| |  ||    ||  || |   |||| | ||| |  ||   | |||   | ||   ||    |  || |                  
GGGTGTATATACCTTGTATCTATGTTGTGAACAAGATTGATCAGATCACACTTGAGGAACTGGAGATCTTGGATAAGCTACCTCATTACTGCCCAATCAGgtaa-tact-tcaaatcattggtcttattattacctcaaaccttttttccattttgaataaagaaaaatcataagacttgtgtacatccttagattattatt

upper sequence: AT4G39520.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA06G15180.2 (Glycine max), 5'ss of exon 7
GGATTTATATGCCCTGTATCTATGCTGTCAACAAGATCGATTCAATCACACTTGAGGAACTTGAAATTTTGGACAAACTTCCTCATTACTGTCCTGTCAGgtaaatgttgttaaattaccggcaggat--ttgcgataaacttgtttacttttgccattaagatataaatttatttatcttgcag-----------------
|  | ||||| || |||||||||| ||| |||||||| |||   ||||||||||||||||| || || ||||| || || ||||||||||| ||  |||||||| |  | | |||| |  ||    ||  || |   | || | ||| |  ||   |  || | | ||   ||    |  || |                  
GAGTATATATACCTTGTATCTATGTTGTGAACAAGATTGATCAGATCACACTTGAGGAACTGGAGATCTTGGATAAGCTACCTCATTACTGCCCAATCAGgtaa-tact-tcaaatcattggtcttattattacctcagaccttttttccattttgaacaaaagaaaatcataagacttctgtacatccttgggttattatt

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|125273571|gb|EL287656.1|EL287656
EST:     CTTGAGGAACTTGAAATTTTGGACAAACTTCCTCATTACTGTCCTGTCAG                         TGCGCATCTGGAGTGGAATCTTGATGG
genomic: CTTGAGGAACTTGAAATTTTGGACAAACTTCCTCATTACTGTCCTGTCAGgtaaatgttg ... tatcttgcagTGCGCATCTGGAGTGGAATCTTGATGG
EST: gi|47830368|gb|CK120052.1|CK120052
EST:     CTTGAGGAACTTGAAATTTTGGACAAACTTCCTCATTACTGTCCTGTCAG                         TGCGCATCTGGAGTGGAATCTTGATGGACTTCTGGACAAGATATGGGAATA
genomic: CTTGAGGAACTTGAAATTTTGGACAAACTTCCTCATTACTGTCCTGTCAGgtaaatgttg ... tatcttgcagTGCGCATCTGGAGTGGAATCTTGATGGACTTCTGGACAAGATATGGGAATA
EST: gi|125247899|gb|EL261984.1|EL261984
EST:     TTGAGGAACTTGAAATTTTGGACAAACTTTCCTCATTACTCTCCTGTCAG                         TGCGCATCTGGAGTGGAATCTTGATGGACTTCTGGACAAGATATGGG
genomic: TTGAGGAACTTGAAATTTTGGACAAAC-TTCCTCATTACTGTCCTGTCAGgtaaatgttg ... tatcttgcagTGCGCATCTGGAGTGGAATCTTGATGGACTTCTGGACAAGATATGGG
EST: gi|86080003|gb|DR375760.1|DR375760
EST:     TCCTCATTACTGTCCTGTCAG                         TGCGCATCTGGAGTGGAATCTTGATGGACTTCTGGACAAGATATGGGAATA
genomic: TCCTCATTACTGTCCTGTCAGgtaaatgttg ... tatcttgcagTGCGCATCTGGAGTGGAATCTTGATGGACTTCTGGACAAGATATGGGAATA