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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACTGGCAAAACAATGCTTGCCAAAGCTGTTGCTAATCATACCACTGCCGCCTTCATCAGGGTTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAGgtatgatttttaagtcatcttcatttggatgcgatgttgacaatgttgtaacttactctgctatctttgtttctttttgaaaattatgggtttccaattc...

Basic information

species Glycine max
transcript GLYMA11G31470.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G31470.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os02g21970.1 (Oryza sativa), 5'ss of exon 2
CACTGGCAAAACAATGCTTGCCAAAGCTGTTGCTAATCATACCACTGCCGCCTTCATCAGGGTTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAGgtatgatttttaagtcatcttcatttggatgcgatgttgacaatgttgtaacttactctgctatctttgtttcttt---ttgaaaattatgggtttccaattc--------
 ||||||||||| ||||| ||||||||||| ||  | || || ||||| || || ||||| ||||| || || ||||||||||| ||||| || |||||||||||    ||| | |   || || |  ||   || || | ||  |   | || |||| | ||  | |  |||  |    | | || | | |  ||  | ||         
AACTGGCAAAACTATGCTCGCCAAAGCTGTGGCACACCACACTACTGCTGCATTTATCAGAGTTGTTGGTTCAGAGTTTGTGCAGAAGTACCTGGGTGAGgtatg----ttaggaccagtttatgtatat---atattaataactt---agctcactc-gttacatcttgttcgctgaaataacaaatctagccttatacttaaaaggttc

upper sequence: GLYMA11G31470.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G090904_T01 (Zea mays), 5'ss of exon 2
CACTGGCAAAACAATGCTTGCCAAAGCTGTTGCTAATCATACCACTGCCGCCTTCATCAGGGTTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAGgtatgatttttaagtcatcttcatttggatgcgatgttgacaatgttgta-acttactctgctatctttgtttctttttgaaaatta-tgggttt-ccaattc
 |||||||| || |||||||||||||| |||||  ||||||||||||| || || |||||||| || || || |||||||| ||||||||  | ||||||||| |  ||   ||  || |   |    ||  ||          |||| | |   | | |  |    |  |   | ||  || |||| ||||||     || |
TACTGGCAAGACCATGCTTGCCAAAGCAGTTGCACATCATACCACTGCTGCTTTTATCAGGGTCGTCGGTTCAGAGTTTGTTCAAAAGTACTTGGGTGAGgtaag--ttgggagctat-tgagtcccaatatgactccttttgagttggatataaaatgtagtgaactgatgcatgttataagattaatgggttagtttatgc

upper sequence: GLYMA11G31470.1 (Glycine max), 5'ss of exon 2
lower sequence: AT5G58290.1 (Arabidopsis thaliana), 5'ss of exon 2
CACTGGCAAAACAATGCTTGCCAAAGCTGTTGCTAATCATACCACTGCCGCCTTCATCAGGGTTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAGgtatgatttttaagtcatcttcatttggatgcgatgttgacaatgttgtaacttactctgctatctttgtttctttttgaaaattatgggtttccaattc
 ||||| || || ||| | || || |||||||| ||||| || ||||| |||||||| |||||||| ||||| |||||||||||||||||||| || ||||||| |     || ||||     | | || |   |     | ||   |  | |   | || |  ||   |   |||||   ||||   |           
TACTGGAAAGACTATGTTGGCTAAGGCTGTTGCCAATCACACAACTGCTGCCTTCATTAGGGTTGTTGGATCCGAGTTTGTGCAAAAGTATCTCGGCGAGgtattaa----aaatcatagctttattgaaggtttaggtcctattgagcgattctatttggtgactaactggtttttt---aattgcag-----------

upper sequence: GLYMA11G31470.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv06s0004g08220.t01 (Vitis vinifera), 5'ss of exon 2
CACTGGCAAAACAATGCTTGCCAAAGCTGTTGCTAATCATACCACTGCCGCCTTCATCAGGGTTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAGgtatgatttttaagtcatcttcatttggatgcgatgttgacaatgttgtaacttactctgctatctttgtttctttttgaaaatt-atgggtttccaattc
|||||| ||||| |||||||| || |||||||| |||||||| ||||| || |||||||| ||||| || || || ||||| || |||||| | ||||||||||| ||   |    ||  || | | ||    | |       ||||    ||| ||   |||  |    |  |    ||  ||| ||   |||    || 
CACTGGTAAAACCATGCTTGCTAAGGCTGTTGCAAATCATACTACTGCTGCTTTCATCAGAGTTGTGGGTTCAGAATTTGTTCAGAAGTATTTGGGTGAGgtatgcttagaataatattatcttgttgaaaataggccatgtgtgtttatgcttccttaactacatcctgtaatggcagaccatttattcatttatcttt-

upper sequence: GLYMA11G31470.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S243_67V6.1 (Physcomitrella patens), 5'ss of exon 2
CACTGGCAAAACAATGCTTGCCAAAGCTGTTGCTAATCATACCACTGCCGCCTTCATCAGGGTTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAGgtatgatttttaa-gtcatc--ttcatttggatgcgatgttgacaatgttgtaacttactctgctatctttgtttctttttgaaaattatgggtttccaattc
 || || || || ||||||||||| || || ||| |||| || || ||||| |||||| | ||||| || ||||||||||| ||||||||||| || |||||| |  ||      | |||   ||||   |   || |||      || ||| ||         | | || |||| | | |    ||     |  | |||   
AACGGGAAAGACCATGCTTGCCAAGGCAGTCGCTCATCACACTACCGCCGCTTTCATCCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTCGGAGAGgtaaggcttgcggcataatcgcctcatagagtgtcgctgtctctgttgctgtgaccagaagctttcttttagtttatctctactcatgtgatgagttcaa---

upper sequence: GLYMA11G31470.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S36_183V6.1 (Physcomitrella patens), 5'ss of exon 2
CACTGGCAAAACAATGCTTGCCAAAGCTGTTGCTAATCATACCACTGCCGCCTTCATCAGGGTTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAGgtatgatttttaagtcatcttcatttggatgcgatgttgacaatgttgtaact--tactctgctatct--ttgtttctttttgaaaattatgggtttccaattc
 || || || || ||||||||||| ||||| ||| ||||||| || || || |||||  | ||||| || ||||||||||| || ||||||||||| ||||||      |||  |      | || | ||||| | ||     || | |  ||  |  | |   | ||  |||| |  |||  ||  | |||       |    
GACAGGAAAGACTATGCTTGCCAAGGCTGTCGCTCATCATACTACCGCAGCTTTCATTCGTGTTGTTGGTTCTGAGTTTGTACAGAAGTATCTTGGGGAGgtaatgccattactttgatacccttagcatgcg-tctttttcttgctattcctgttgttatagaaactgtttgtctgatttataaggtcatgaaagattat---

upper sequence: GLYMA11G31470.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S147_100V6.1 (Physcomitrella patens), 5'ss of exon 2
CACTGGCAAAACAATGCTTGCCAAAGCTGTTGCTAATCATACCACTGCCGCCTTCATCAGGGTTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAGgtatgatttttaa-gtcatc--ttcatttggatgcgatgttgacaat-gttgtaacttactctgctatctttgtttctttttgaaaattatgggtttccaattc
 || || || || ||||||||||| ||||| ||| | ||||||||||| || |||||  | ||||| || ||||||||||| |||||||||||||| |||||| | ||| | |  | |||  |||||| |  |  | |  || |  |    |    ||| | |   |  ||| | ||| |||  |  | ||  ||||       
AACGGGAAAGACCATGCTTGCCAAGGCTGTCGCTCACCATACCACTGCAGCTTTCATTCGTGTTGTTGGTTCTGAGTTTGTACAAAAGTATCTTGGGGAGgtagggtttctgacataatcacttcattagattttgtttgtgtctgtcaccgctttttagtttttaaaatttttatctcttttcatgtgataagtttagc----

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|254324498|gb|GR833923.1|GR833923
EST:     CATCATGGTTGTAGGATTTGAGTTTTG-GCCAAAAGTATCTTGGTGAG                         GGTCCACGATTGGTTCGTGATGTATTTCGTCTCGCTAAAGAGAATGCGCCT
genomic: CATCAGGGTTGTAGGATCTGAG-TTTGTG-CAAAAGTATCTTGGTGAGgtatgatttt ... tttattttagGGTCCACGAATGGTTCGTGATGTATTTCGTCTCGCTAAAGAGAATGCGCCT
EST: gi|5677488|gb|AI938618.1|AI938618
EST:     CCTTCATCAGGGTTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAG                         GGTCCACGAATGGTTCGTGATGTATTTCGTCTCGCTAAAGAGAATGCGCCT
genomic: CCTTCATCAGGGTTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAGgtatgatttt ... tttattttagGGTCCACGAATGGTTCGTGATGTATTTCGTCTCGCTAAAGAGAATGCGCCT
EST: gi|254324497|gb|GR833922.1|GR833922
EST:     CCTTCATCAGG-TTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAG                         G-TCCACGAATGGTTCGTGATGTATTTCCTCTCGCTAA-GAGAATGCGC
genomic: CCTTCATCAGGGTTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAGgtatgatttt ... tttattttagGGTCCACGAATGGTTCGTGATGTATTTCGTCTCGCTAAAGAGAATGCGC
EST: gi|298195266|gb|HO043794.1|HO043794
EST:     CCTTCATCAGGGTTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAG                         GGTCCACGAATGGTTCGTGATG
genomic: CCTTCATCAGGGTTGTAGGATCTGAGTTTGTGCAAAAGTATCTTGGTGAGgtatgatttt ... tttattttagGGTCCACGAATGGTTCGTGATG