Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCGCTGCATATGACAAAACTCAGGGGAAAATGGCCTTCTTTGATCCTTCCAGGTCTCAAGACTTCCTCTTCATATCAGGAACCAAGgtaaaacccaattccggagctccaaatctgatttcttactctagtgactaagaaaataacttggatcggatggttttgttttgtag

Basic information

species Arabidopsis thaliana
transcript AT5G43780.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G43780.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G38760.1 (Glycine max), 5'ss of exon 4
GTCGCTGCATATGACAAAACTCAGGGGAAAATGGCCTTCTTTGATCCTTCCAGGTCTCAAGACTTCCTCTTCATATCAGGAACCAAGgtaaa---acccaattccggagctccaaatctgatttcttactctagtgactaagaaaataacttggatcggat-ggttttgttttgtag--------------
|| |||||||||||||| |||||||| |||||||| |||||||| ||||| ||| |||| |||||||| ||||||||||| || |||||| |   |     |  | ||    |||| ||   |   || | | ||   | |||||||    |  ||    |   ||||  ||  ||               
GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAGgtatatttatttgttctctgaataacaaaccttggtg--tagtttggt--ttgagaaaatgttgtttatgttttcacttttaattactaaaacgtcaccttatt

upper sequence: AT5G43780.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G28980.1 (Glycine max), 5'ss of exon 4
GTCGCTGCATATGACAAAACTCAGGGGAAAATGGCCTTCTTTGATCCTTCCAGGTCTCAAGACTTCCTCTTCATATCAGGAACCAAGgtaaa---accc----aattccggagctccaaatctga-------tttcttactctagtgactaagaaaataactt--ggatcggatggttttgttttgtag
|| |||||||||||||| |||||||| |||||||| |||||||| ||||| ||| |||| |||||||| ||||||||||| || |||||  |   | ||    |||  |  | ||   ||| |||       ||| ||| | |  |   | |     ||||||     |   |   | |    || |  
GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAGgtgcatttatcctctgaataacaaaccttggaatttgagaaaatattttttattttcat--tttatgttttaacttctaattactaaaatgtcaccttattt

upper sequence: AT5G43780.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G28980.2 (Glycine max), 5'ss of exon 4
GTCGCTGCATATGACAAAACTCAGGGGAAAATGGCCTTCTTTGATCCTTCCAGGTCTCAAGACTTCCTCTTCATATCAGGAACCAAGgtaaa---accc----aattccggagctccaaatctga-------tttcttactc-----tagtgactaagaaaataacttggatcggatggttttgttttgtag
|| |||||||||||||| |||||||| |||||||| |||||||| ||||| ||| |||| |||||||| ||||||||||| || |||||  |   | ||    |||  |  | ||   ||| |||       ||| ||| |      |  ||  | |     ||| |   |     |    || ||||    
GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAGGTgcatttatcctctgaataacaaaccttggaatttgagaaaatattttttattttcattttatgttttaacttctaattactaaaatgtcaccttattttt---

upper sequence: AT5G43780.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv05s0020g04210.t01 (Vitis vinifera), 5'ss of exon 4
GTCGCTGCATATGACAAAACTCAGGGGAAAATGGCCTTCTTTGATCCTTCCAGGTCTCAAGACTTCCTCTTCATATCAGGAACCAAGgtaaaacccaattccgg-----agctccaaatctgatttcttact------ctagtga-----ctaa-------gaaaataacttggatcggatggttttgttttgtag-----------------------------------------------------
|| ||||||||||| |||||||||   |||||||| ||||||||||| || ||| |||||||||||||||||||||| || || |||||| |           |     |  | || | ||  ||| ||| |      ||| |||     | ||       |||||| | |  ||  ||       | ||||  |                                                      
GTTGCTGCATATGATAAAACTCAGAATAAAATGGCATTCTTTGATCCCTCAAGGGCTCAAGACTTCCTCTTCATATCTGGCACAAAGgtatattttttgcataggaaaaaaatgcagacctctttttttatttcatatctaatgataatcccaaaatggctgaaaattattcagactgggcatgcatttttttcaacatggaaatatttgatggatgatgtttctgaacaaggccgctacattttgcag

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|116454015|gb|EG496607.1|EG496607
EST:     TCTTTGATCCTTCCAGGTCTCAAGACTTCCTCTTCATATCAGGAACCAAG                         ATGCGTGGGTTGGCGAAGAAGAAAGAGAACCCCCCAGATGGTTTCATGTGT
genomic: TCTTTGATCCTTCCAGGTCTCAAGACTTCCTCTTCATATCAGGAACCAAGgtaaaaccca ... tgttttgtagATGCGTGGGTTGGCGAAGAAGAAAGAGAACCCACCAGATGGTTTCATGTGT
EST: gi|116377755|gb|EG420347.1|EG420347
EST:     TCTTTGATCCTTCCAGGTCTCAAGACTTCCTCTTCATATCAGGAACCAAG                         ATGCGTGGGTTGG
genomic: TCTTTGATCCTTCCAGGTCTCAAGACTTCCTCTTCATATCAGGAACCAAGgtaaaaccca ... tgttttgtagATGCGTGGGTTGG
EST: gi|116454026|gb|EG496618.1|EG496618
EST:     TCTTTGATCCTTCCAGGTCTCAAGACTTCCTCTTCATATCAGGAACCAAG                         ATGCGTGGGTTGGCGAAGAAGAAAGAGAACCCACCAGATGGTTTCATGTGT
genomic: TCTTTGATCCTTCCAGGTCTCAAGACTTCCTCTTCATATCAGGAACCAAGgtaaaaccca ... tgttttgtagATGCGTGGGTTGGCGAAGAAGAAAGAGAACCCACCAGATGGTTTCATGTGT