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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttcatatgtcttttctattattttcctccacaacttgggggaacaaaattttgagaatgtgctttcttggagaatcttatgttctctgctttttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTGCTTTATTGAAACCTCATGAGAGAATTATGGCACTTGATCTTCCCCATGG

Basic information

species Glycine max
transcript GLYMA02G38160.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g52840.2 (Oryza sativa), 3'ss of exon 5
--gttcatatgtct-tttctattattttcctccacaacttgggggaacaaaattttgagaatgtgctttcttggagaatcttatgttctctgctttttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTGCTTTATTGAAACCTCATGAGAGAATTATGGCACTTGATCTTCCCCATGG
  || | ||  | | | |  | || ||     || || ||  |    |     |   | || |||   |  |       |      | ||| | | |   |||| ||||||||| |  |||| || || ||| | |||||||| |||||||||||  |||||||||| ||||||||||| |||||  | |||||||| |||||
ttgtacttaaatttatctagaatacttattctcaaaattttagttttcttt-ctccaaaaaggtggcattctaacttgacaaccaatttctacctct--gcagTGAATGTGCAACCTCTATCAGGGTCACCTGCCAACTTCCATGTTTACACTGCCCTATTGAAACCACATGAGAGAATCATGGCTTTGGATCTTCCTCATGG

upper sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 5
lower sequence: AT5G26780.1 (Arabidopsis thaliana), 3'ss of exon 5
gttcatatgtcttttctattattttcctccacaacttgggggaacaaaatttt----gagaatgtgctttcttggagaatcttatgttctctgctttttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTGCTTTATTGAAACCTCATGAGAGAATTATGGCACTTGATCTTCCCCATGG
     | ||    ||  || | |||| |    || |  |   ||  ||||  |    || |      || ||    ||  |   |||||       |||   |||||||||||| || ||||| ||||| ||  |||| ||||||||||||||||| || ||||| |||||||| ||||| |||||||||||| | || |||||
----gtgtgctaattacat-actttcgttgtgaattgtgattaaagaaatcctactagaaaccaaatttactaatggagacacttgttca------ttttgtagTCAATGTGCAGTCTTTATCAGGATCACCAGCTAATTTCCAAGTTTACACTGCATTGTTGAAGCCTCATGAAAGAATCATGGCACTTGATTTACCTCATGG

upper sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv18s0001g07960.t01 (Vitis vinifera), 3'ss of exon 5
---gttcatatgtcttttctattattttcctccacaacttgggggaacaaaattttgagaatgtgctttcttggagaatcttatgttctctgctttttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTGCTTTATTGAAACCTCATGAGAGAATTATGGCACTTGATCTTCCCCATGG
   ||| | ||   || |||||  || ||| |  | || |   |  ||| | || |||  |    |||| ||  |   |  | | || | |  |||||| ||||||||||||| |||||||||||||||||| | ||||| |||| |||||| || ||||| ||||||||||||||||| ||||||||||||||||| |||||
tttgtttaaatcatttatctat--ttgtccgctcccacgtaaagagacatatttctgaacaccaactttatttaaagcttatttatt-tattttttttggcagTCAATGTGCAGTCATTATCTGGATCCCCTGCCAACTTTCAAGCTTACACGGCATTATTAAAACCTCATGAGAGAATCATGGCACTTGATCTTCCTCATGG

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|15814712|gb|BI786987.1|BI786987
EST:     TCAGAAGCGTGCACTTGAAGCTTTTCGGCTGGATCCAGCAAAATGGGGAG                         TCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTG
genomic: TCAGAAGCGTGCACTTGAAGCTTTTCGGCTGGATCCAGCAAAATGGGGAGgttagtattt ... tttttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTG
EST: gi|24205505|gb|BU964758.1|BU964758
EST:     CAGAAGCGTGCACTTGAAGCTTTTCGGCTGGATCCCAG-AAAATGGGGAA                         TCAATGTGCAATCATTATCTGGATCCCCTTCTAA
genomic: CAGAAGCGTGCACTTGAAGCTTTTCGGCTGGATCC-AGCAAAATGGGGAGgttagtattt ... tttttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAA
EST: gi|6566248|gb|AW233929.1|AW233929
EST:     TCAGAAGCGTGCACTTGAAGCTNTTCGGCTGGATCCAGCAAAATGGGGAG                         TCAATGTGCAATCATTATC
genomic: TCAGAAGCGTGCACTTGAAGCTTTTCGGCTGGATCCAGCAAAATGGGGAGgttagtattt ... tttttgacagTCAATGTGCAATCATTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaattttgagaatgtgctttcttggagaatcttatgttctctgctttttgacagTCAATGTGCAATCATTATCTGGATCCCCTTCTAACTTCCAAGTTTACACTGCTTTATTGAAACCTCATGAGAGAATTATGGCACTTGATCTTCCCCATGG
                                   tgttctctgcttttt  CT-rich tract
                            aatcttat  TA-rich tract