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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGACAGCAGGGTTCATATCCAATCAAATTGTTTTATACCTCCAACATGCCCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagctgtatgataggttggacttaatgtttttggatttattgttttaacagtctaatttattctacttgttcag

Basic information

species Glycine max
transcript GLYMA13G34370.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G34370.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os09g17840.1 (Oryza sativa), 5'ss of exon 3
TGGACAGCAGGGTTCATATCCAATCAAATTGTTTTATACCTCCAACATGCCCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagctgtatgataggttggacttaatgtttttggatttatt------gttttaacagtctaatttattctacttgttcag------------------
 || ||||| || ||||||||||| || ||||| || || || ||||||||||||||||| || ||||| ||  || |||| ||||||||||| || |||||   |  ||||||   |    |||  ||| |  | ||    | | |      |||||||||   ||| | |      ||   ||                   
GGGGCAGCAAGGCTCATATCCAATTAAGTTGTTCTACACTTCAAACATGCCCATCATTCTGCACTCTGCACTGATTACCAACCTCTACTTCATATCACAGgtgcgt--gctgta-attgtagtggctttagtaatatttacatgactgagcaagttttaacatgataactgagcaagttttaacatatatttattttgttgcag

upper sequence: GLYMA13G34370.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os09g17830.1 (Oryza sativa), 5'ss of exon 3
TGGACAGCAGGGTTCATATCCAATCAAATTGTTTTATACCTCCAACATGCCCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagctgtatgataggttggacttaatgtttttggatttattgttttaacagtcta-atttattctacttgtt-cag
 || ||||| || ||||||||||| || ||||| || || || ||||||||||||||||| || ||||| ||  || |||| ||||||||||| || |||||   |  || ||||  |||    |   |||| |||      ||| || |  |    |  | || | ||    ||||| |||
GGGGCAGCAAGGCTCATATCCAATTAAGTTGTTCTACACTTCAAACATGCCCATCATTCTGCACTCTGCACTGATTACCAACCTCTACTTCATATCACAGgtgcgt--gcggtattgtagtgccgcagtaatatttaca---ttactgatcaagtttttaacatgtttttattttgttgcag

upper sequence: GLYMA13G34370.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G307252_T02 (Zea mays), 5'ss of exon 4
TGGACAGCAGGGTTCATATCCAATCAAATTGTTTTATACCTCCAACATGCCCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaa-----ttaagctgtatgataggttggacttaatgtttt--tggatttat-tgttttaacagtctaatttattctacttgttcag
||| || || || ||||| |||||||| ||||| ||||| ||||||||||| |||||||| || ||||| ||  || |||| ||||| ||||| |||||||||      | ||      || |   ||  | || || ||||  || ||||   ||   ||| | | |  | |||   |         
TGGTCAACAAGGCTCATACCCAATCAAGTTGTTCTATACTTCCAACATGCCTATCATTCTGCACTCTGCACTAATTACCAACCTCTATTTCATATCCCAGgtatgtgcttcaattccagtgtttcattacaattgatcttttcatgaatttgcatggactaaaaatgtt-tctatggcag--------

upper sequence: GLYMA13G34370.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S323_56V6.1 (Physcomitrella patens), 5'ss of exon 4
TGGACAGCAGGGTTCATATCCAATCAAATTGTTTTATACCTCCAACATGCCCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagctgtatgataggttggacttaatgtttttggattt--attgttttaacagtctaatttattctacttgttcag----------------------------------------------------------
||| || || || || ||||| |||||| | || || |||||||||||||||||||||||||||  |||||| || |||||  | |||||||| || |||||| ||    | | | |    |||   | ||| | |   | ||   |||  |||| || |   |  |||  |  |   |                                                             
TGGTCAACAAGGATCTTATCCTATCAAACTATTCTACACCTCCAACATGCCCATCATTCTTCAGAGTGCCCTCGTATCCAACTTGTACTTCATTTCACAGgtattttttttctgttac---ttgtcttcaatctatacagcttgcaatttctttagcaatgcgaagtatcgttgtcaatggtttcaactcattaacttcttggaattaattaaaattcaaaagacttgtcgtcttttcag

upper sequence: GLYMA13G34370.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S114_48V6.1 (Physcomitrella patens), 5'ss of exon 4
TGGACAGCAGGGTTCATATCCAATCAAATTGTTTTATACCTCCAACATGCCCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagctgtatgataggttggacttaatgtttttggatttattg-ttttaacagtctaatttattctacttgttcag---------------
 || || || || || || || || || ||||| || ||||||||||||||||||||||| |||   |||||||| |||||  | |||||||| || |||||   |   || | || |    | ||||    |  || |  |  | |  || | | || |   | || || ||||| |                  
CGGTCAACAAGGATCTTACCCTATTAAGTTGTTCTACACCTCCAACATGCCCATCATTCTCCAGAGCGCCCTTGTCTCCAACTTGTACTTCATTTCACAGgt---tcgcctctctgttcttgttgact-gtcgcattcgtgtcaagtaattctgaaagacgtgtctactc-acttgcttttgtttgtgtgttccag

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|13788204|gb|BG650796.1|BG650796
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|298188471|gb|HO035164.1|HO035164
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|7691868|gb|AW759987.1|AW759987
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|26058357|gb|CA801271.1|CA801271
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|298168692|gb|HO009622.1|HO009622
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|17020953|gb|BM091987.1|BM091987
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|17964777|gb|BM271506.1|BM271506
EST:     CTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|8827474|gb|BE211204.1|BE211204
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|18690777|gb|BM519625.1|BM519625
EST:     CCATCATTCTTCAGACTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|57575142|gb|CX548117.1|CX548117
EST:     CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CCATCATTCTTCAGTCTGCCCTTGTTTCCAATCTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
EST: gi|20813072|gb|BQ297550.1|BQ297550
EST:     CTCTACTTCATCTCCCAG                         CTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA
genomic: CTCTACTTCATCTCCCAGgtaattaagc ... acttgttcagCTGCTCCACCGTAAGTACAGCGGAAACTTCTTCGTAGATCTATTGGGAAAA