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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGTGAGCGCATGGTGAGGTGTTTGTTTGATCTTGCAAGAGCATATGCACCAAGCACAATATTCATTGATGAAATTGATTCTCTATGCAATTCTAGGGGgtaagcctttgttgttctttcagtcgtccattgtatgtagtagattttgaaacatgcttatatttacccaaaataatcttcttcatttaattctttgttt...

Basic information

species Glycine max
transcript GLYMA08G22210.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G22210.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g49000.1 (Oryza sativa), 5'ss of exon 4
AGAGTGAGCGCATGGTGAGGTGTTTGTTTGATCTTGCAAGAGCATATGCACCAAGCACAATATTCATTGATGAAATTGATTCTCTATGCAATTCTAGGGGgtaagcctttgttgttctttcagtc--gtccattgtatgtagtagattttgaaacatgcttatatttacccaaaataatcttcttcatttaattctttgttt---
||||||||||||||||  | ||||| ||||||||||||||    ||||| ||||| ||||| ||||||||||||||||| || || ||||  ||| | ||||| |    || | |   | ||  |  || |||  | | || |   |    | |||     |  ||| | ||| |    ||| ||    ||||  |  ||     
AGAGTGAGCGCATGGTCCGCTGTTTATTTGATCTTGCAAGGTTCTATGCTCCAAGTACAATCTTCATTGATGAAATTGACTCCCTCTGCACATCTCGTGGgtatgtgaatgctatctgtccatacatgttcatcttgtttaatgtctccaaagaca-atcaaagttttctcaata----ctttttagcataatcatgggtgcatt

upper sequence: GLYMA08G22210.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G054715_T01 (Zea mays), 5'ss of exon 4
AGAGTGAGCGCATGGTGAGGTGTTTGTTTGATCTTGCAAGAGCATATGCACCAAGCACAATATTCATTGATGAAATTGATTCTCTATGCAATTCTAGGGGgtaagcctttgttgttctttcagtcgtccattgtatgtagtagattttgaaacatgcttatatttacccaaaataatcttcttcatttaattct-ttgttt-----------------------------------------------------------
| ||||||||||||||  | ||||| ||||||||||| || || ||||| ||||| ||||| ||||||||||||||||| ||  ||||||  ||  | ||||| |          | |   ||| || ||||   |  |||  ||    |||  |  | |   ||   ||  |||| | |     | | |||||  ||                                                              
AAAGTGAGCGCATGGTTCGTTGTTTATTTGATCTTGCGAGGGCCTATGCTCCAAGTACAATTTTCATTGATGAAATTGACTCCTTATGCACATCACGTGGgtatgtgaagtcaagtttgctagttgttcatttactcgagtcaatg--aaaatttcttcaatattttgcaccataagcatgaatgtatcattctgctggacaagaaaaaatgtacctatatcgccagttaatgtatttgtccattttttctacatatcag

upper sequence: GLYMA08G22210.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G017305_T02 (Zea mays), 5'ss of exon 1
AGAGTGAGCGCATGGTGAGGTGTTTGTTTGATCTTGCAAGAGCATATGCACCAAGCACAATATTCATTGATGAAATTGATTCTCTATGCAATTCTAGGGGgtaagcctttgttgttctttcagtcgtccattgtatgtagtagattttgaaacatgcttatat-ttacccaaaataatcttcttcatttaattct-ttgttt---------------------------------------------------------
||||||||||||||||  | || || ||||||||||| || || ||||| ||||| ||||| ||||||||||||||||| ||  ||||||  ||  | ||||| |      |  || |   ||  ||   | || | ||  ||    ||||| || | |  || ||   ||  |||| |       | | |||||  |                                                             
AGAGTGAGCGCATGGTCCGTTGCTTATTTGATCTTGCGAGGGCCTATGCTCCAAGTACAATTTTCATTGATGAAATTGACTCCTTATGCACGTCGCGCGGgtatgtggagttaattttcctagatgttgctcgtgtctacaagtcaatgaaaaattcctcaatattttgcactataagcaagaatgtatcattctgctagacaacagaaaatgtacctatatgtttaatgtatttatccattttctttcttaatatcag

upper sequence: GLYMA08G22210.1 (Glycine max), 5'ss of exon 4
lower sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 4
AGAGTGAGCGCATGGTGAGGTGTTTGTTTGATCTTGCAAGAGCATATGCACCAAGCACAATATTCATTGATGAAATTGATTCTCTATGCAATTCTAGGGGgtaagcctttgttgttctttcagtcgtccattgtatgtagtagattttgaaacatgcttatatttacccaaaataatcttcttcatttaattctttgttt
|||||||||||||||| || ||  |||||||||| || || |||||||| ||||||||||| || |||||||| || || ||||| ||||||||| ||||||||       || | ||  |  |  |    | |   || |  | |  ||||  |  || || ||     |  |    | |                   
AGAGTGAGCGCATGGTCAGATGCCTGTTTGATCTGGCTAGGGCATATGCTCCAAGCACAATTTTTATTGATGAGATCGACTCTCTCTGCAATTCTCGGGGgtaaa------ttttcctgacgatactgagatttcgatactgaaat--gaaaagtatttgtaattggtggaggtgtgatgcag-----------------

upper sequence: GLYMA08G22210.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0002g05260.t01 (Vitis vinifera), 5'ss of exon 4
AGAGTGAGCGCATGGTGAGGTGTTTGTTTGATCTTGCAAGAGCATATGCACCAAGCACAATATTCATTGATGAAATTGATTCTCTATGCAATTCTAGGGGgtaagcc-tttgttgttctttcagtcgtccattgtatgtagtagattttgaaacatgcttatatttacccaaaataatcttcttcatttaattctttgttt-
||||||||||||||||  | || || ||||||||||||||||| ||||| ||||| || || || ||||| || ||||||||||| |||||| || |||||||||   ||||   |   ||  |||     ||| | || ||| ||  | |     || |  | |||    |||   |  |  |  |||| || | | |   
AGAGTGAGCGCATGGTCCGTTGCTTATTTGATCTTGCAAGAGCTTATGCTCCAAGTACTATTTTTATTGACGAGATTGATTCTCTTTGCAATGCTCGGGGgtaagtaatttgccttctcttttgtcaggttttg-aagttgtatatgctcacttg-gcgtccacttagttcaaagtctaataattgtttagttttctatccc

upper sequence: GLYMA08G22210.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S213_118V6.1 (Physcomitrella patens), 5'ss of exon 5
AGAGTGAGCGCATGGTGAGGTGTTTGTTTGATCTTGCAAGAGCATATGCACCAAGCACAATATTCATTGATGAAATTGATTCTCTATGCAATTCTAGGGGgtaagcctttgttgttctttcagtcgtccattgtatgtagtagattttgaaacatgcttatatttacccaaaataatcttcttcatttaattctttgttt------
|||||||||||||||||||    ||||||||||||||  | || || || || |||||||||||||||||||| || ||||| || |||||| |  | ||||||| ||    | |   ||  | |    |  || |   || |  ||||  | |||   ||||||     || | || |||  ||| ||      || |       
AGAGTGAGCGCATGGTGAGAGTCTTGTTTGATCTTGCCCGTGCCTACGCTCCTAGCACAATATTCATTGATGAGATCGATTCGCTGTGCAATGCCCGTGGgtaagtctgatatctgtgttttgcctcgaaaggtttactgttgcctttggga-atgagaatatttc----aagtgatgttca-catgtaccatcctgatggttaga

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|17024043|gb|BM095077.1|BM095077
EST:     CCAAGCACAATATTCATTGATGAAATTGATTCTCTATGCAATTCTAGGGG                         GGCTTCTGGTGAGCATGAATCGTCCAGA
genomic: CCAAGCACAATATTCATTGATGAAATTGATTCTCTATGCAATTCTAGGGGgtaagccttt ... acttaatcagGGCTTCTGGTGAGCATGAATCGTCCAGA