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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attattttttttgttctgtttacttttcagttatcatttgctatgcattattattgaatatacattatgtatcctaattgcttgcacgatttttatgcagCGTAATTATCGGTTCTTCTTCATGTTTGTCTTCTCAACTACGCTACTGTGTATATATGTTTTTGCATTTTGCTGGGTCTATATTGTAAGAATTATGGCAT

Basic information

species Glycine max
transcript GLYMA16G05670.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G05670.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os08g42370.3 (Oryza sativa), 3'ss of exon 3
-------------------------------attattttttttgt----------tctgtttacttttcagttatcatttgctatgcattatt-attgaatatacattatgt-------atcctaattgcttgcacgatttttatgcagCGTAATTATCGGTTCTTCTTCATGTTTGTCTTCTCAACTACGCTACTGTGTATATATGTTTTTGCATTTTGCTGGGTCTATATTGTAAGAATTATGGCAT-
                                 |||  ||   ||          | ||  || || |  |   | |||      |   | || |||||     | | |  |       | ||||||   |    |   |||  |||||||||||||||||||||||| ||||||||| ||||| || ||| |||| ||  | || || ||||| || || ||||| || ||  | |  |||| |  || 
gtaagtatcatgtttttccagcagttctgtacctatccttaccgtaggaaagacatgtgcgtatttgtttggagttattcttccagtgcttttcattgagctctcttcaaatcaacttgagcctaatca-taaagcatatttggtgcagCGTAATTATCGGTTCTTCTACATGTTTGTATTCTCGACCACGTTACTCTGCCTCTACGTATTTGCTTTCTGTTGGGTGTACATAATCAAGATTA-GAAATG

upper sequence: GLYMA16G05670.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM5G821611_T01 (Zea mays), 3'ss of exon 3
---------------------------------------------------------------------------attattttttt--tgttctgtttacttttcagttatcatttgctatgcattatt-attgaatatacattatgt--atcctaattgcttgcacgatttttatgcagCGTAATTATCGGTTCTTCTTCATGTTTGTCTTCTCAACTACGCTACTGTGTATATATGTTTTTGCATTTTGCTGGGTCTATATTGTAAGAATTATGGCAT
                                                                           |||  | |||    || || |||     |   || ||||||  | |   || || | | | | |  ||| |||  | ||| ||      ||     ||| ||||||||||||||||||||||||  |||||||| ||||| || ||  | || ||  | ||||| ||||| || || ||||| ||| |  | |  ||||  ||  
gtaagttactcgagatgctagctgttttaatagcgtccttatattagaacaatcgcggtgtgcacatacacttgaattgatgtttggaggtactctttctgggtagattttcatttttt-taagttgttgactaactttctattctgttaagcctgatcatcaacata---tttgtgcagCGTAATTATCGGTTCTTCTATATGTTTGTATTCTCGACGACATTGCTCTGCCTCTATGTATTTGCCTTCTGTTGGGTGTATGTGATCAAGATTAGAGCTG

upper sequence: GLYMA16G05670.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G068657_T02 (Zea mays), 3'ss of exon 3
-------------------------------------------attattttttttgttctgt----ttact-tttcagttatcatttgctatgcattattattgaatatacattatgtatcctaattgcttgcacgatttttatgcagCGTAATTATCGGTTCTTCTTCATGTTTGTCTTCTCAACTACGCTACTGTGTATATATGTTTTTGCATTTTGCTGGGTCTATATTGTAAGAATTATGGCAT
                                           |||| ||   ||| | | |     |||| |||| |    |||||  | || ||  | | | | | |  ||| ||| |   | |  |   ||   | ||| ||||||||||||||||||||||||  |||||||| | ||| || ||  | || ||  | ||||| ||||| || || ||||| ||| |  | |  ||||  ||| 
gtaagttacacaagattactaggtgtttcataggcgtcctcatattacttgaattgatatttagagctactatttctgggtacattttttttgaatgttgactaactttctattttgt-taagactgaccatcaatgtatttgtgcagCGTAATTATCGGTTCTTCTATATGTTTGTATCCTCGACAACATTGCTCTGCCTGTATGTATTTGCCTTCTGTTGGGTGTATGTGATCAAGATTAGAGCAG

upper sequence: GLYMA16G05670.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G179002_T03 (Zea mays), 3'ss of exon 3
----attattttttttgttctgtttacttttcagttatcatttgctatgcattattattgaatatacattatgta-tcctaattgcttgcacgatttttatgcagCGTAATTATCGGTTCTTCTTCATGTTTGTCTTCTCAACTACGCTACTGTGTATATATGTTTTTGCATTTTGCTGGGTCTATATTGTAAGAATTATGGCAT
    ||    | || |  ||||   | |  |||||    ||||  |    ||||  |    || |   |||| |  | |||| |||  |      | |  ||||||| ||||||||||||||||  |||||||| ||||| || ||  |||||||| | ||||| ||||  || ||||  || || ||||| |  ||||  |   
ttgcatccagtattgttatctgcagattgctcagtag--atttctttgtaattaacagcagatct-tgttatttggtgctaactgcacgttta--tctgctgcagCGCAATTATCGGTTCTTCTATATGTTTGTATTCTCTACAACATTACTGTGTCTCTATGTATTTGGCTTCTGCTTTGTGTACATTGTCAAGATTAAAGACG

upper sequence: GLYMA16G05670.2 (Glycine max), 3'ss of exon 3
lower sequence: AT5G41060.1 (Arabidopsis thaliana), 3'ss of exon 3
attattttttttgttct--gtttacttttcagttatcatttgctatgcattattattgaatatacattatgtatcctaattgcttgcacgatttttatgcagCGTAATTATCGGTTCTTCTTCATGTTTGTCTTCTCAACTACGCTACTGTGTATATATGTTTTTGCATTTTGCTGGGTCTATATTGTAAGAATTATGGCAT
 | | ||| |  ||| |  |||| | | || ||||   | ||  ||            | | || || ||  |||  | |  | |     ||||    |||| | || ||||| ||||||||||||||||||||||| || || || || ||| ||||||| || || ||||| || ||||| ||    |  || |  |  |
gtaagtttctcggtttttcgttttcctgtccgttagtttctgacatc-----------agtctatataattcatctcattctccttgggaattt----gcagAGAAACTATCGATTCTTCTTCATGTTTGTCTTCTCCACGACTCTTCTCTGTGTATATGTGTTCGCCTTTTGTTGTGTCTACATAAAGAAGATCAAAGAGT

upper sequence: GLYMA16G05670.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G26935.1 (Arabidopsis thaliana), 3'ss of exon 3
---attattttttttgttctgtttacttttcagttatcatttgctatgcattattattgaatatacattatgtatcctaattgcttgcacgatttttatgcagCGTAATTATCGGTTCTTCTTCATGTTTGTCTTCTCAACTACGCTACTGTGTATATATGTTTTTGCATTTTGCTGGGTCTATATTGTAAGAATTATGGCAT
   | |     |     |         ||| || ||||       ||  |  ||  ||   || | || ||     || ||    || | | || ||  |||| | || || || |||||||||||||| |||||||| || || || || ||||||||||| ||||| || ||||||||||||||   ||  ||||||| ||
gtaagtcaaaatccaactgatcccgtctttaagctatccac----ataaaccatagtttcctaaatatcat-----ctcatattctg-atggttgtt--gcagAGGAACTACCGATTCTTCTTCATGTTCGTCTTCTCCACGACCCTTCTATGTATATATGTGTTTGCCTTCTGCTGGGTCTATATAAGAAAGATTATGGAAT

upper sequence: GLYMA16G05670.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 3
attattttttttgttctgtttacttttcagttatcatttgc-tatgcattattattgaatatacattatgt-atcctaattgcttgcacgattttta-tgcagCGTAATTATCGGTTCTTCTTCATGTTTGTCTTCTCAACTACGCTACTGTGTATATATGTTTTTGCATTTTGCTGGGTCTATATTGTAAGAATTATGGCAT
  | ||    ||||  | || ||      | ||  | |     |||   | | | |   |   || |   | |  || |   ||| ||| ||| |   |||||||||||||||| || |||||||||||||||||||| || || || || ||||||||||| ||||  || |||||||||||||||   || || ||||  |
--ttttccagttgtcatcttcaccaacatgataggaatgatgcatgtgct-tgaatttgtgggcaatgcatgaatctgaacactttcacaattctgggtgcagCGTAATTATCGATTTTTCTTCATGTTTGTCTTCTCGACGACTCTTCTTTGTATATATGTGTTTGGGTTCTGCTGGGTCTATATTAAGAGGATCATGGATT

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|298192663|gb|HO033097.1|HO033097
EST:     GTCCTTGGGTTGGGCAGTGTATTGGGCTG                         CGTAATTATCGGTTCTTCTTCATGTTTGTCTTCTCAACTACGCTACTGTGC
genomic: GTCCTTGGGTTGGGCAGTGTATTGGGCTGgtatgttgga ... ttttatgcagCGTAATTATCGGTTCTTCTTCATGTTTGTCTTCTCAACTACGCTACTGTGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattattattgaatatacattatgtatcctaattgcttgcacgatttttatgcagCGTAATTATCGGTTCTTCTTCATGTTTGTCTTCTCAACTACGCTACTGTGTATATATGTTTTTGCATTTTGCTGGGTCTATATTGTAAGAATTATGGCAT
                          tcctaat  putative branch site (score: 2)
                                            tttttat  putative PPT
     ttattgaatatacatt  TA-rich tract