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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTCTGGGTTAATCTGATAATGGACACTCTTGGAGCATTGGCTTTGGCTACTGAACCACCCACTGATCACCTCATGGGGAGGCCTCCAGTTGGCAGAAAgtactgttttttccgccttctctcattcaaacttaataaaacatttggttttgtagacatagacttattgttatctttctttgcttcgacttctttttgcag

Basic information

species Arabidopsis thaliana
transcript AT5G57110.2
intron # 29
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 29
lower sequence: LOC_Os02g08010.1 (Oryza sativa), 5'ss of exon 11
TTCTCTGGGTTAATCTGATAATGGACACTCTTGGAGCATTGGCTTTGGCTACTGAACCACCCACTGATCACCTCATGGGGAGGCCTCCAGTTGG-CAGAAAgtactgttttttccgccttctctcattcaaacttaataaaacatttggttttgtagacatagacttattgttatctttctttgcttcgacttctttttgcag
|||| ||||| ||||| || |||||||| ||||| ||| | || ||||||||||||||||| || || || || |||  | |||| || ||||| | |||  || |     |    ||  | |    |||    ||||     |||   ||   |    | ||   ||     ||  |    |||||  || | ||    |||
TTCTTTGGGTCAATCTCATTATGGACACACTTGGTGCACTTGCATTGGCTACTGAACCACCAACAGACCAACTTATGAAGCGGCCACCTGTTGGACGGAAgttagtacacctgaaaccaacccgtgctcac-tataattcttgattgtcttaaatttgtaaaggaataacaaaattctaacatgctttcacat-ttaacacag

upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 29
lower sequence: GRMZM5G893864_T01 (Zea mays), 5'ss of exon 7
TTCTCTGGGTTAATCTGATAATGGACACTCTTGGAGCATTGGCTTTGGCTACTGAACCACCCACTGATCACCTCATGGGGAGGCCTCCAGTTGG-CAGAAAgtactgttttttccgccttctctcattcaaacttaataaaacatttggttttg-tagacatagacttattgttatctttctttgcttcgacttctttttgcag
|||||||||||||||| || |||||||| || || ||  | |||||||||||||||||||| || ||||| || ||| || |||| |||||||| | ||   ||    | |||     ||   |||||   |        |    |||  |    ||| | ||| ||   ||  | | |    |  | |  | |   | ||   
TTCTCTGGGTTAATCTCATCATGGACACACTCGGTGCTCTTGCTTTGGCTACTGAACCACCAACAGATCAACTTATGAGGCGGCCACCAGTTGGACGGAGgttagaagtctttttattttgaatcattattatgagtgtgattgattgcctccactaggcctagcctgcatgc-agcataacctaatccaccataaatatg---

upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 29
lower sequence: GLYMA17G06520.1 (Glycine max), 5'ss of exon 30
TTCTCTGGGTTAATCTGATAATGGACACTCTTGGAGCATTGGCTTTGGCTACTGAACCACCCACTGATCACCTCATGGGGAGGCCTCCAGTTGGCAGAAAgt-actgttttttccgccttctctcattcaaacttaataaaacatttggttttgtagacatagacttattgttatctttctttgcttcgacttctttttgcag------
|||||||||| ||||| || ||||| |||||||||||||| || ||||| ||||||||||| ||||||  ||| ||||       ||||   ||  ||| || | | ||||||||  | | | |  |   ||   || ||||         ||  ||| | |    || ||| |    ||   |       |    ||  ||       
TTCTCTGGGTAAATCTTATCATGGATACTCTTGGAGCATTAGCCTTGGCAACTGAACCACCAACTGATTCCCTGATGGATCAAAGTCCAAAGGGTCGAAGgtcaattttttttccatcattttttttatgaaagcaagaaaa---------ttaaagagagaagaataatgtaaaagatcaaagtgatatatatccttcacaaaatacc

upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 29
lower sequence: GLYMA13G00420.1 (Glycine max), 5'ss of exon 28
TTCTCTGGGTTAATCTGATAATGGACACTCTTGGAGCATTGGCTTTGGCTACTGAACCACCCACTGATCACCTCATGGGG-AGGCCTCCAGTTGGCAGAAAgtactgttttttccgcc-ttctctcattcaaacttaataaaacatttggttttgtaga---catagacttattgttatctttctttgcttcgacttctttttgcag
|||||||||| ||||| || ||||| |||||||||||||| || ||||| |||||||| || ||||||   || ||||   |   | | |   | || |    | | ||||| ||  | || ||| | | |||  ||  |||  |    |    | | |   || |   | |  || || | || ||      |   |         
TTCTCTGGGTAAATCTTATCATGGATACTCTTGGAGCATTAGCCTTGGCAACTGAACCGCCAACTGATTCTCTGATGGATCAAAGCCCTAAGGGTCAAAGgtcaatttttttcccatcattttcttaatgaaagctaggaaattaaagagagaagaataacgcacaagatcaaagtgatatatccttcacaaaataccaa-------

upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 29
lower sequence: GLYMA09G06890.1 (Glycine max), 5'ss of exon 27
TTCTCTGGGTTAATCTGATAATGGACACTCTTGGAGCATTGGCTTTGGCTACTGAACCACCCACTGATCACCTCATGGGGAGGCCTCCAGTTGGCAGAAAgtactgttttttccgccttctctcattcaaacttaataaaacatttggttttgtagacatagacttattgttatctttctttgcttcgacttctttttgcag----
|||| ||||| ||||| || ||||| ||||| |||||  ||||  |||| ||||||||||| ||||||||||||||||   |  ||||||| ||  ||| ||     |||||     || ||| |||   | ||    |   || |  | ||||||   |  ||  | || |       || |  || ||    ||    ||    
TTCTTTGGGTGAATCTTATCATGGATACTCTGGGAGCGCTGGCCCTGGCAACTGAACCACCAACTGATCACCTCATGGATCGAACTCCAGTGGGTCGAAGgtcagaatttttat---ttttctgattatta-ttggggacttatatattattgtagggttgcac--agtgcttggaaaattagtgtcaacacagttggaaagccaa

upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 29
lower sequence: GLYMA15G18180.1 (Glycine max), 5'ss of exon 27
TTCTCTGGGTTAATCTGATAATGGACACTCTTGGAGCATTGGCTTTGGCTACTGAACCACCCACTGATCACCTCATGGGGAGGCCTCCAGTTGGCAGAAAgtactgttttttccgccttctctcattcaaacttaataaaacatttggttttgtagacatagacttattgttatctttctttgcttcgacttctttttgcag---
|||| ||||| ||||| || ||||| ||||| |||||| | ||  |||| ||||||||||| ||||||||||||||||   |  | ||||| ||  ||| ||     |||||     || ||| |||   | |   ||  |||  |  |    |   |||    ||  | | ||  || |  | ||  ||    ||| | |    
TTCTTTGGGTAAATCTTATCATGGATACTCTGGGAGCACTAGCCCTGGCAACTGAACCACCAACTGATCACCTCATGGATCGATCCCCAGTGGGTCGAAGgtcagagtttttat---ttttctgattattattgggtactacagatcatggcattt-catttgtttgctat-attattgtagggttgcacagtgtttggaaaatt

upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 29
lower sequence: Vv11s0052g00320.t01 (Vitis vinifera), 5'ss of exon 30
TTCTCTGGGTTAATCTGATAATGGACACTCTTGGAGCATTGGCTTTGGCTACTGAACCACCCACTGATCACCTCATGGGGAGGCCTCCAGTTGGCAGAAAgtactgttttttccgccttctctcattcaaacttaataaaacatttggtttt-gtagaca-tagacttattgttatctttctttgcttcgacttctttttgcag
| |||||||||||||| || ||||| |||||||||||| | || ||||| ||||||||||| || |||||||| |||   ||||||||||||||  ||| ||| | ||||||      |       || || | ||||     | |    |  || || | | |  | |    | ||  |    | ||  | |    ||     
TCCTCTGGGTTAATCTTATCATGGATACTCTTGGAGCACTTGCATTGGCCACTGAACCACCAACAGATCACCTGATGCACAGGCCTCCAGTTGGTCGAAGgtaattttttttttaatgttgggagatccaa-taaatactgtttataaactaagtggaaaattgggtcagatctgtccctggaggtttgaattgtgcttca---

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|86081055|gb|DR376812.1|DR376812
EST:     ACTGAACCACCCACTGATCACCTCATGGGGAGGCCTCCAGTTGGCAGAAA                         AGAACCTCTTATTACCAACATCATGTGGAGAAACTTGCTGATCCAG
genomic: ACTGAACCACCCACTGATCACCTCATGGGGAGGCCTCCAGTTGGCAGAAAgtactgtttt ... ctttttgcagAGAACCTCTTATTACCAACATCATGTGGAGAAACTTGCTGATCCAG