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

CGCTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAAGgttagttcttctagcaaatcaaacaaaagttaatctggtaaatcgatattgcaatatccctgactaactaactattgctgtctcgacatcgtattttatacttcag

Basic information

species Arabidopsis thaliana
transcript AT4G39520.1
intron # 9
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 9
lower sequence: GLYMA04G39690.1 (Glycine max), 5'ss of exon 9
CGCTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAAGgttagttcttctagcaaatcaaacaaaagttaatctggtaaatcgatattgcaatatccctgact--aactaactattgctgtctcga-catcgtattttatacttcag-------------------
 ||| |||| |||||||||||||| ||||||||||| ||||||||||| ||||||  |  |      || | |    |   ||    |  |       |  ||   | |  ||   |  |     ||    |  | | || |||   |  |  || |  |                    
TGCTTTGGTCTGGGGTTCAAGTGCAAAACACAAGCCTCAAAGAGTTGGCAAGgttgatattgtacttaatttactttatttttggcttcatcctctttttgtgttgtgtttctacttttattcttctccctcattgttgagcatgccacctactaatcgaaatatgttgttgcttaccag

upper sequence: AT4G39520.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA06G15180.2 (Glycine max), 5'ss of exon 9
CGCTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAAGgttagttcttctagcaaatcaaacaaaagttaatctggta---aatcgatattgcaatatccctgactaactaactattgctgtctcgacatcgtattttatacttcag-------------------
 ||| |||| |||||||||||||| ||||||||||| ||||||||||| ||||||  | ||      || | | |  |   ||    |  |      |   ||||| | |    ||      ||      |  |   |  ||||   |  |  ||  |                      
TGCTTTGGTCTGGGGTTCAAGTGCGAAACACAAGCCTCAAAGAGTTGGCAAGgttgatactgtacttaatttacattattttttgcttcatcctcttttcgtattgtatttctacttttattcttctccctcgtagttgaacatgtcacctactaagtggaatatgttgttgcgtaccag

upper sequence: AT4G39520.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: PP1S26_115V6.1 (Physcomitrella patens), 5'ss of exon 9
CGCTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAAGgttagttcttctagcaaatcaaacaaaagttaatctggtaaatcgatattgcaatatccctgactaactaactattgc-tgtctcgac-atcgtattttatacttcag
 ||| |||| ||||||||||| || |||||||||||||| ||||| |||||||| || |  || ||    |       |   || | ||       |   ||     ||  ||     |   ||| |||| |||   | | | | |||  ||| |     
TGCTTTGGTGTGGGGTTCAAGCGCAAAACACAAGCCACAGAGAGTGGGAAAGgtgagattctcaagtctttgcgttgta---tagtatgaattgctgtccttatggaatgtctagtccaa-gacttttgcatgttctgtccagcctatcgtatcca----

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|124742827|gb|EH833989.1|EH833989
EST:     TTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAAG                         GAACACGAGCTTGAGGACGAGGATGTTGTTCAGATCGTTAAAAAGATATGA
genomic: TTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAAGgttagttctt ... tatacttcagGAACACGAGCTTGAGGACGAGGATGTTGTTCAGATCGTTAAAAAGATATGA
EST: gi|86076547|gb|DR372304.1|DR372304
EST:     CTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAAG                         GAACACGAGCTTGAGGACGAGGATGTTGTTCAGATCGTTAAAAAGATATGA
genomic: CTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAAGgttagttctt ... tatacttcagGAACACGAGCTTGAGGACGAGGATGTTGTTCAGATCGTTAAAAAGATATGA
EST: gi|86080003|gb|DR375760.1|DR375760
EST:     CTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAAG                         GAACACGAGCTTGAGGACGAGGATGTTGTTCAGATCGTTAAAAAGATATGA
genomic: CTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAAGgttagttctt ... tatacttcagGAACACGAGCTTGAGGACGAGGATGTTGTTCAGATCGTTAAAAAGATATGA