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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgactgtgtgatatattttgtcatcatttgtaacaccaagctctaagctcttgcaagtagtgagtttcatactaactatctttttgttgtttttttcttttcaatcaattttcagGCTGAAGGTATATTTCGTATTAACCCTGAAAATAGTCAAGAGGAGCATGTGAGGGACCAGTTGAATAGGGGCATTGTGCCGGATGACATTGATGTCCACT

Basic information

species Glycine max
transcript GLYMA02G17070.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G17070.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os12g34840.1 (Oryza sativa), 3'ss of exon 2
gtactgactgtgtgatatattttgtcatcatttgtaacaccaagctctaagctcttgcaagtagtgagtttcatactaactatctttttgttgtttttttcttttcaatcaattttcagGCTGAAGGTATATTTCGTATTAACCCTGAAAATAGTCAAGAGGAGCATGTGAGGGACCAGTTGAATAGGGGCATTGTGCCGGATGACATTGATGTCCACT
           || |   ||       ||| ||||    ||      |   ||||      || ||  |||     ||  |   |||  |  |  || |   |||       ||||||||||||||| || ||||| || ||||| ||||||   |||||||||||||||||||||||| |||| |  ||  |||| || || ||||||||||| ||||
-----------gtcaggcatcacaagttcacttgttgttcc-----tttgactctgtttgata-tgcatttacagtta--tggatttgcggcgcattctgagttttgcc---ttttcagGCTGAAGGAATCTTTCGCATAAACCCGGAAAATGACCAAGAGGAGCATGTGAGGGACCAGCTGAACAAAGGAGTTGTCCCTGAGGACATTGATGTTCACT

upper sequence: GLYMA02G17070.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G323936_T01 (Zea mays), 3'ss of exon 1
gtactgactgtgtgatatattttgtcatcatttgtaacaccaag--ctctaagctcttgcaagtagtgagtttcatactaactatctttttgttgtttttttcttttcaatcaattttcagGCTGAAGGTATATTTCGTATTAACCCTGAAAATAGTCAAGAGGAGCATGTGAGGGACCAGTTGAATAGGGGCATTGTGCCGGATGACATTGATGTCCACT
    |     ||||  ||        |||  || ||| || |||   | | ||   |||  |   ||||    |||   ||||   ||  |  | |    ||  |   | || |||||||| |||| || || ||||| ||||| || || |||   ||||||||||| |||||||||||| |||| |  || ||||| || |||||||||||||| ||||
--gttagtcatgtggcatga------atctattataaaactaagacttttgagtgtttgtcat--gtga----catga-aactgatttgctcctatggaattactaaaattccattttcagTCTGAGGGGATCTTTCGCATTAATCCAGAGAATGACCAAGAGGAGCACGTGAGGGACCAGCTGAACAAAGGAATTGTACCTGATGACATTGATGTTCACT

upper sequence: GLYMA02G17070.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0104g01120.t01 (Vitis vinifera), 3'ss of exon 2
--------gtactgactgt-gtgatatattttgtcatcatt-tgtaacaccaagctctaagctcttgcaagtagtgagtttcatactaactatctttttgttgttttt-----ttcttttcaatcaattttcagGCTGAAGGTATATTTCGTATTAACCCTGAAAATAGTCAAGAGGAGCATGTGAGGGACCAGTTGAATAGGGGCATTGTGCCGGATGACATTGATGTCCACT
         |   | ||   ||  |||||          |  ||  | |  |      ||  |||   || | |   | || || |   |||| |      | || ||      | |||| | |   |||  |||| ||||| || ||||| || ||||| || ||||| ||||| |||  ||||||||||||| |||| ||||||||||||||   ||| |||||||| ||||
gtatgaacttttaggctacagtagtatatcagaaagatgtgatgggaaaggagaagaaaatttctaaaaatttggttgctttat-caggctatttcagcaattttcttactgacttttttgagtggttttgtagGCAGAAGGGATTTTTCGGATAAACCCGGAGAATAGCCAAGAAGAGATTGTGAGGGACCAGCTGAACAGGGGCATTGTGCCCACTGATATTGATGTTCACT

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|298194653|gb|HO043125.1|HO043125
EST:     CTATTCTCTTGCTAATGCAGGACCGTCTATACTCACAGGGAGGCTTAAAG                         GCTGAATGTATATTTCGTATTAACCCTGAAAATAGTCAAGAGGGGCATGTG
genomic: CTATTCTCTTGCTAATGCAGGACCGTCTATACTCACAGGGAGGCTTAAAGgtactgactg ... caattttcagGCTGAAGGTATATTTCGTATTAACCCTGAAAATAGTCAAGAGGAGCATGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagtttcatactaactatctttttgttgtttttttcttttcaatcaattttcagGCTGAAGGTATATTTCGTATTAACCCTGAAAATAGTCAAGAGGAGCATGTGAGGGACCAGTTGAATAGGGGCATTGTGCCGGATGACATTGATGTCCACT
         tactaac  putative branch site (score: 0)
                  tctttttgttgttttt  putative PPT
                             tttttttcttttcaat  TA-rich tract