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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTGCACTTCAGATGGCAGTGGAAGCCGATAATCCTTATTTTCGATTGGGTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAGgtactggatactgaattataccactaataggtcatgttgatgattccgttgtttaattctacaaatctgattgcaatttggtgattttgcag

Basic information

species Glycine max
transcript GLYMA02G46230.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G46230.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g67520.2 (Oryza sativa), 5'ss of exon 3
CCTTGCACTTCAGATGGCAGTGGAAGCCGATAATCCTTATTTTCGATTGGGTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAGgtactggatactgaattataccactaataggtcatgttgatgattccgttgtttaattctacaaatctgattgcaatttggtgattttgcag
 |||||  |  |  | |||   |||||  |  |||| |  ||  || | |||||||||||  |||||| ||| ||||||||||| ||||| |||||||||||  |||  |    || |      |     ||| |     | | |   || |    | || |   |   |    |||| |  |         
ACTTGCCATGTATGTTGCAAGTGAAGCAAAGGATCCATTCTTCAGAGTTGGTTACAACAGTCTGGGTGGTTTCGCAACTATCAATCATCTCCACTTCCAGgt--tggtcatgtcataacttt-ttcccgtgtcctaactctaaatttcttatgatgtcctgctgttgacacattaattcgtag---------

upper sequence: GLYMA02G46230.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G359397_T03 (Zea mays), 5'ss of exon 5
CCTTGCACTTCAGATGGCAGTGGAAGCCGATAATCCTTATTTTCGATTGGGTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAG-
  | ||  |  |  | |||   |||||    | ||| |  ||  || | ||||| |||||| |||| |  ||||||||||||||||| ||||||||||||    ||| |  | ||  ||  ||    |||||  ||  | |   ||||   ||    |   ||| |  ||  | |||  || |  | || |     |||| |        
AATAGCCATGTATGTTGCAAGAGAAGCAAGGACTCCCTTCTTCAGAGTTGGTTATAACAGCCTGGGCGGCTTTGCAACTATCAACCACCTTCACTTCCAGgttagtatttagaatgtctcgatgtcatatacttctggttgcagcatggcaattga-caactgtctgtatattgcaatcctcaaagtaagtcatatatttcgttcactag

upper sequence: GLYMA02G46230.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G26850.1 (Arabidopsis thaliana), 5'ss of exon 5
CCTTGCACTTCAGATGGCAGTGGAAGCCGATAATCCTTATTTTCGATTGGGTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAGgtac-tggatactgaattataccactaataggtcatg-ttgatgattcc-gttgtttaattctacaaatctgattgcaatttggtgattttgcag----
 |||||| |||| ||||| |  || || | |||||| || ||  || | |||||||||||||||||||||||||| |||||||| ||||| ||||| ||||||  |  | |    ||   | ||  |     |||   ||| | ||    | |||||  |   |    | || | |  |||    | ||||| |     
GCTTGCAGTTCACATGGCTGCTGAGGCTGCTAATCCATACTTCAGACTCGGTTACAACAGCTTGGGTGCTTTTGCCACTATCAATCATCTCCACTTTCAGgtatatccaaaagtgatccaagcataaccttttcacccttgctcatctaagatgtttgttctgattgttttggtggtgatt----gtttttggaaacag

upper sequence: GLYMA02G46230.1 (Glycine max), 5'ss of exon 5
lower sequence: AT5G55120.1 (Arabidopsis thaliana), 5'ss of exon 5
CCTTGCACTTCAGATGGCAGTGGAAGCCGATAATCCTTATTTTCGATTGGGTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAGgtactggatactgaattatacca------ctaataggtcatgttgatgattccgttgtttaattctacaaatctgatt--gcaatttgg--tgattttgcag----------------------------------------------------------
 ||||| ||||| ||||| |  |||||||||||||| ||||| ||| | || ||||||||  | || ||||| || || || |||||||||||||| ||||||      |   |||  | | |       | |||    ||     | | |  ||| |  ||||||  |||||  ||   ||||  ||   |||                                                                  
GCTTGCTCTTCAAATGGCGGCTGAAGCCGATAATCCGTATTTCCGACTTGGATACAACAGTCTAGGCGCTTTCGCTACCATTAACCATCTTCACTTTCAGgtaaacagaatcaaatagttcgaaatttgtttataaccaatcggttttaatttgttatg-aattctcgaaatcgaataaagcaacatgaactgaaccaaataactgaatgctctcacctttatactattgtgatatttatggagattctacttggaacag

upper sequence: GLYMA02G46230.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv19s0090g01000.t01 (Vitis vinifera), 5'ss of exon 5
CCTTGCACTTCAGATGGCAGTGGAAGCCGATAATCCTTATTTTCGATTGGGTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAGgta---------ctggatactgaattataccactaataggtcatgttgatgattccgttgtttaattc--tacaaatctgattgcaatttggtgattttgcag
 ||||| ||| | ||||| |||||||| |  ||||| ||||| || ||||||||||||||||||||||| ||||| || |||||||| |||||||| |||||          ||      |||| |  |  |  | |     ||     ||  ||| ||| |||||    ||  |||   ||  |  |||  || |    |||
GCTTGCCCTTGACATGGCTGTGGAAGCAGGAAATCCATATTTCCGGTTGGGTTACAACAGCTTGGGTGCATTTGCTACCATCAACCACCTTCACTTTCAGgtttctttccacctcacctttgaactgca--atcattgtactataaaattggctccattggttaatgaaatatgaattccataac--tttcatggta--acag

upper sequence: GLYMA02G46230.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S9_179V6.1 (Physcomitrella patens), 5'ss of exon 5
CCTTGCACTTCAGATGGCAGTGGAAGCCGATAATCCTTATTTTCGATTGGGTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAGgtactggatactgaattatacca---ctaataggtcatgt-tgatgattccgttgtttaattctacaaatctgattgcaatttggtgattttgcag----
 || ||  | || ||||| |  || ||  | ||||| ||||| ||  | |||||||||||||||||||| ||||| || ||||||||  | || |||||||||  | | |      | || ||     | |  |   | | ||| | |   | |  |||  | ||  |||    ||  ||   |   ||   |  |    
ACTGGCTTTGCACATGGCTGCTGAGGCAAACAATCCGTATTTCCGCCTAGGTTACAACAGCTTGGGTGCATTTGCCACAATCAACCACTTGCATTTCCAGgtagagtacatgcccatgtagcaggttaagtctgctgtctctgacgctcaagctaattacgtgtagcaattgcgttcaaagaagtcaatgccgttgagag

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|7326949|gb|AW620747.1|AW620747
EST:     GTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGA
genomic: GTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAGgtactggata ... gattttgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGA
EST: gi|298182882|gb|HO031617.1|HO031617
EST:     GTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAGA
genomic: GTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAGgtactggata ... gattttgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAGA
EST: gi|12771995|gb|BG236922.1|BG236922
EST:     GTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAGA
genomic: GTTACAACAGCTTGGGTGCTTTTGCAACTATCAACCATCTTCACTTCCAGgtactggata ... gattttgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAGA
EST: gi|192297939|gb|FG988381.1|FG988381
EST:     GGTGCTTTTGCAACTATCAACCATCTTCACTTCCAG                         GCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAGA
genomic: GGTGCTTTTGCAACTATCAACCATCTTCACTTCCAGgtactggata ... gattttgcagGCTTATTATTTGGCTCTGCCCTTCCCAATTGAGAAGGCCCCCACTAAGAGA