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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggaaactatgaatcttgggatgtgtgtttctttttcatggctttgcttgcatgctgaatatgtggctggttttctttgttgtgttgtgtgtgtgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG

Basic information

species Glycine max
transcript GLYMA04G39390.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G39390.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g47850.3 (Oryza sativa), 3'ss of exon 3
-------------------------------------------------gtgaggaaactatgaatctt-------gggatgtgtgtttctttttcatggctttg---cttgcatgctgaatatgtggctggttttctttgttgtgttgtgtgtgtgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG
                                                 | || |    |||   ||||       | ||      |  | |  |||     |||   |  || | |||  ||| || |             |    |       ||     |||||||||||| |||||||||||||| || |||||||| || ||||| |||||||| |||||||||||||| || |||||  | |||  ||
gtaaatcaactaaccgtttgagtgatggcatttgtttcctgttgtggttgagatgtgcttattgttcttcctgatagagaaacaactaacctcatcaaatagttgagacgcgcgtactgcttat-tgacaacaggaaacaactaacctcatcaaatgggctgcagGTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTG

upper sequence: GLYMA04G39390.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G029573_T01 (Zea mays), 3'ss of exon 3
gtgaggaaactatgaatcttgggatgtgtgtttctttttcatggctttgcttgcatgctgaatatg-tggctggttttctttgttgtgttgtgtgtgtgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG
   |   ||| |||| |  | | |||    | | ||  | ||       | |  || ||   || |        || |   |    ||     | |||| ||  ||| ||||| || |||||||| ||||| ||||||||||| |||||||| || ||||| || || ||||||||||| |||||| | |||  ||
---attgaac-atgacttgtcg-atgcagttatgttgatgattatgcaccata-attctaggtaggactaagaattgttacttacatggcacatttgtggttg-cagCTATCAGGAGATTTTGACCGATCCAAGTTATGCTGGTCAGTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG

upper sequence: GLYMA04G39390.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G27740.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgaggaaactatgaatcttgggatgtgtgtttctttttcatggctttgcttgcatgctgaatatgtggctggttttctt--tgttgtgttgtgtgtgtgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG
                   |  | | |||  ||   ||||||    |  | |  | | |   |   |   | | || ||   | ||   || ||| |||  ||   ||||||||||||||||| |||||||||||||||||||| ||||||||||| |||||||||||||| ||||| ||||||||  | |||  ||
------------------gtatgttttgttctttgatttcattatatcacctcaaagattgttgatt--ttagcttactgaatcttagattttgtttgtttttggaagGTATCAAGAAATTTTAACTGATCCTAGTTATGCTGGGCAGTTTGTGCTAATGACAAACCCACAAATTGGTAATACTGGTGTCAATCCTG

upper sequence: GLYMA04G39390.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S11_3V6.1 (Physcomitrella patens), 3'ss of exon 2
-gtgaggaaactatgaatcttgggatgtgtgtttctttttcatggctttgcttgcatgctgaatatgtggctggttttctttgttgtgttgtgtgtgtgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG
    |  || | | |  |      |||||  |   |     |||||  ||       |||||     || |   || |    | | |      ||| |   |  ||| ||||||||||||||||| ||||| |||||  | || || ||||| ||||||||  | ||||||||||| ||||| ||  | ||  |||
ttacatcaagcgacgttttaacaaatgtgaatgaatgaagaatggcagtg-------gctgataggttgacaaattcttacgggttttcatcttgtatttctgacagTTATCAAGAAATTTTGACCGATCCAAGTTACTCCGGGCAATTTGTACTCATGACTCAACCACATATTGGCAATACAGGGGTCAACCTTG

upper sequence: GLYMA04G39390.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ19894 (Selaginella moellendorffii), 3'ss of exon 2
gtgaggaaactatgaatcttgggatgtgtgtttctttttcatggctttgcttgcatgctgaatatgtggctggttttctttgttgtgttgtgtgtgtgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG
                                     |   |   | |  || |||  || ||      |       ||||   ||||||  |||    ||  ||||||||| || ||| | |||||||| ||||||||||||||||| ||| | |||||  | || || |||||||| |||||| | |||||||
------------------------------------gtatgtatttctctttccattttggat-cacaacca-----ctttaaagtgttgcatgtcc--ttcccagGTATCAGGAGATTATCACTGATCCGAGTTATGCTGGCCAGTTCGTGGTTATGACTCAACCGCACATTGGGAACACTGGCGTCAATTTTG

upper sequence: GLYMA04G39390.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ07419 (Selaginella moellendorffii), 3'ss of exon 2
gtgaggaaactatgaatcttgggatgtgtgtttctttttcatggctttgcttgcatgctgaatatgtggctggttttctttgttgtgttgtgtgtgtgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG
                                     |   |   | |  || |||  || ||      |       ||||   ||||||  |||    ||  ||||||||| || ||| | |||||||| ||||||||||||||||| ||| | |||||  | || || |||||||| |||||| | |||||||
------------------------------------gtatgtatttctctttccattttggat-cacaacca-----ctttaaagtgttgcatgtcc--ttcccagGTATCAGGAGATTATCACTGATCCGAGTTATGCTGGCCAGTTCGTGGTTATGACTCAGCCGCACATTGGGAACACTGGCGTCAATTTTG

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|298163265|gb|HO011998.1|HO011998
EST:     GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|208289150|gb|GE081467.1|GE081467
EST:     GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|213620406|gb|DB957303.1|DB957303
EST:     GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|298180620|gb|HO025707.1|HO025707
EST:     GCTTCAGGGACCCAAGTTGGCGAAGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|16997114|gb|BM086486.1|BM086486
EST:     GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|298166083|gb|HO009054.1|HO009054
EST:     GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCGTTGACAGG                         GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|120531240|gb|EH259373.1|EH259373
EST:     GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|207686059|gb|GD670385.1|GD670385
EST:     GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTT
genomic: GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTT
EST: gi|213605660|gb|DB972308.1|DB972308
EST:     GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|192322448|gb|FK014929.1|FK014929
EST:     GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|33388074|gb|CA851281.1|CA851281
EST:     GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACAACATTGACAGG                         GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|18735504|gb|BM528801.1|BM528801
EST:     GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|209726906|gb|BW680261.1|BW680261
EST:     GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
EST: gi|208063827|gb|GD861981.1|GD861981
EST:     TGGCGAGGTTGTTTTCAATACATCATTGACAGG                         GTATACAAAGAAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCT
genomic: TGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTAT-C-AAG-AAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCT
EST: gi|207799067|gb|GD771356.1|GD771356
EST:     CTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACTATCATTGACAGG                         GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTT
genomic: CTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATAC-ATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTT
EST: gi|192326456|gb|FK017713.1|FK017713
EST:     GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGG                         GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT
genomic: GCTTCAGGGACCCAAGTTGGCGAGGTTGTTTTCAATACATCATTGACAGGgtgaggaaac ... tgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcatgctgaatatgtggctggttttctttgttgtgttgtgtgtgtgattatcagGTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTG
                      ttttcttt  TA-rich tract