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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tacatataattacatattacctatacatttacacttaattagaatgttttttgtgtggactattatgtaataatgtggtgtttgtgtgataaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCAACCATTCCAATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTTGGTG

Basic information

species Glycine max
transcript GLYMA11G02530.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G02530.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os04g47220.1 (Oryza sativa), 3'ss of exon 1
-tacatataattacatattacctatacatttacacttaattagaa-tgttttttgtgtggacta--ttatgtaataatgtggtg-tttgtgtgataaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCAACCATTCCAATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTTGGTG
 |   ||||   || || |||      |   |  |  |  | ||| | |||||  |||   ||   | ||  | |  |||  |  |||| | |||        ||||  | || || || |||||||||||||| ||||| ||||| ||| |||| ||||| || ||||| || || ||||| |||||||| ||||| ||||| |
gttagtataccaac-tactactgcagtaaagattcagagatggaagtatttttactgttttctgagtgattgatttttgttttaatttgcgcgatctt-ccacagATCCTTGCCCCACTGCCAATCGGGTTTGCGGTGTTCTTGGTTCACCTGGCCACCATCCCCATCACCGGCACCGGCATCAACCCAGCGAGGAGCCTTGGCG

upper sequence: GLYMA11G02530.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G174807_T01 (Zea mays), 3'ss of exon 2
tacatataattaca-tattacctatacatttacacttaattagaatgttt-tttgtgtggactattatgtaataatgtggtgtttgtgtgataaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCAACCATTCCAATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTTGGTG
      | | |||| ||| | |  | | ||    |||| |      ||   |  |||    ||   |  ||   |||   | |||||| ||  ||     ||||  | || |||||||||||||||||||| |||||  | |||||| |||| ||||| || ||||| || || ||||| ||||| ||  |||| ||||| |
-----gtgagtacagtatcagccttgccttcctgcttattcgcctcgtccgtccgtgcaagct-cgacttatcgatggtttctttgtg-gacgaatgaacagATCCTCGCCCCTCTTCCAATCGGGTTTGCCGTGTTCCTCGTCCACCTGGCCACCATCCCTATCACCGGCACCGGCATCAACCCCGCGCGGAGCCTTGGCG

upper sequence: GLYMA11G02530.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0046g02410.t01 (Vitis vinifera), 3'ss of exon 2
tacatataattacatattacctatacatttacacttaattagaatgttttttgtgtggact-attatgtaataatgtggtgtttgtgtga-taaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCAACCATTCCAATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTTGGTG
 || |    || |    |   | | ||   | || | |    | | ||     || |  || |  |||  | |   |    |||   ||| |  || || |||||||||||||||| || || |||||||| ||||| ||||| ||  |||||||||| || ||||| ||||| ||||| ||||| ||||||||||| || |
gacgtcccctttcgctctcatttttcaaccatacctga--gaattattacgaatgggatctgaaaatgacacaccctttattttccctgaattgaactgcagATTTTGGCTCCTCTCCCGATTGGGTTTGCAGTGTTCTTGGTTCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTCGGGG

upper sequence: GLYMA11G02530.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0025g03390.t01 (Vitis vinifera), 3'ss of exon 2
----tacatataattacatattacctatacatttacacttaattagaatgttttttgtgtggactattatgtaataatgtggtgtttgtgtgataaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCAACCATTCCAATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTTGGTG
          || ||| |   ||  ||  |  ||||    |||  |||    |    |    |   | |  ||        |   || |   ||| |  || |||||||||| || || || || |||||||| ||||| ||||| |||||||| ||||| || |||||||||||||||||||||||||| ||||||||||| |
ttttctttggtagttagagggtagtta--ccattactagaaatgtgaacaagtcccatacaaatcttgagttaccctaaccgaaattcttgaatata--tgcagATTTTGGCCCCCCTCCCCATTGGGTTTGCAGTGTTCTTGGTTCACTTGGCCACCATCCCCATCACAGGAACTGGCATTAACCCAGCCAGGAGTCTTGGAG

upper sequence: GLYMA11G02530.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0046g02420.t01 (Vitis vinifera), 3'ss of exon 2
tacatataattacatattacctatacatttacacttaattagaatgttttttgtgtggactattatgtaataatgtggtgtttgtgtg------ataaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCAACCATTCCAATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTTGGTG
       | || | | | |  | | ||   |  | | ||   | |  || |||        ||     |||||   |   ||| | |        |  || || |||||||||||||||| || || |||||||| ||||| ||||| ||  |||||||||| || ||||| ||||| ||||| ||||| ||||||||||| || |
-----ccattttcctctcattt-ttcaaccattcctgatggtatttattattgcaaatgggatctgaaaataacacgccctttatttttcctgcgttgaactgcagATTTTGGCTCCTCTCCCCATTGGGTTTGCAGTGTTCTTGGTTCATCTGGCAACCATCCCCATCACCGGAACCGGCATCAACCCTGCTAGGAGTCTGGGGG

upper sequence: GLYMA11G02530.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S1_535V6.2 (Physcomitrella patens), 3'ss of exon 2
---------------------taca-tataattacatattacctatacatttacacttaattagaatgttttttgtgtggactattatgtaat---aatgtggtgtttgtgtgataaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCAACCATTCCAATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTTGGTG
                     | || |  | ||  | ||||||    |    ||         ||   ||  |  |    ||  |||  |  |   ||  || || |  |  |||  | ||| || |  | || |||||||| ||||| || || || ||  |||| |||||||| |||||||| ||||| ||||||||||| ||||| ||  | ||||| ||||
gtgagtacactccgtttccggtgcagttcagttctagattaccgcgcctgagacgtgctggctgatctttggtactcctcacagttagatggtctcaaaatgatgctc-ttcgatggacttgcagGTGCTTGCGCCTCTTCCCATCGGATTCGCAGTTTTCCTGGTGCACTTGGCCACCATTCCCATCACCGGAACTGGCATCAACCCCGCCCGTAGTCTAGGTG

upper sequence: GLYMA11G02530.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S102_107V6.1 (Physcomitrella patens), 3'ss of exon 2
----------------------------------------------------------tacatataattacatatt-acctatacatttacacttaattagaatgttttttg----tgtggactattatgtaataatgtggtgtttgtgtgataaaa----------ttgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCAACCATTCCAATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTTGGTG
                                                          |   | | || ||  ||| |   | |  |  |    |  | |  | |   |       |    |  |  ||  || ||  ||           ||||||          ||| || |  | || |||||||| || || || || |||||| |||| || ||||| |||||||| ||||| ||||||||||||||||| ||  | ||||| || |
gtatgtttcacttattcacggtggtacatttcaattacagggaaagttggagggtggatgtgttttatcactgatttaatcagatctgaattgctgctgacgacgacataaaaaaataaaaataaaaataaaaaaaactgaaacaaaaaaaataaaaactcttcgtcttgcagGTGCTTGCCCCTCTTCCTATTGGATTCGCAGTGTTTCTGGTACATTTGGCCACCATTCCCATCACCGGAACTGGCATTAACCCTGCACGTAGTCTGGGCG

upper sequence: GLYMA11G02530.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ18960 (Selaginella moellendorffii), 3'ss of exon 2
-----------------------------------------------------------------------------------------tacatataattac-atattacctatacatttacacttaattagaatgttttttgtg--tggact---attatgtaataatgtggtgtttgtgtgataaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCAACCATTCCAATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTTGGTG
                                                                                         ||  | |  || |  || | ||| |    ||   ||||  |    |  |  |  ||  | || |     |||||   ||  |        |  |  |    |  || |||||||||| ||||||||||||||||| |||||  | |||||| | || || || || ||||| || || ||||| ||||||||  | ||||| ||  
gtacgtttcttcttccatccaaagctttggttgattcccctctcatgaagttttgcttttcttcttcttatcttcttgtgtggttttcctagtttttcttgctgtacttcctcttatcttctccttatctcttctcctcctcatggatagatttaagatatgttccaagctcacaaactttggcgatttctacagCTTTTGGCTCCACTTCCAATCGGGTTTGCGGTGTTCCTCGTCCACCTTGCCACGATCCCCATCACTGGCACGGGCATCAACCCAGCGCGAAGTCTCGGCT

upper sequence: GLYMA11G02530.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ11572 (Selaginella moellendorffii), 3'ss of exon 2
-------------------------------------------------------------------------------------------tacatataattac-atattacctatacatttacacttaattagaatgttttttgtg--tggact---attatgtaataatgtggtgtttgtgtgataaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCAACCATTCCAATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTTGGTG
                                                                                           ||  | |  || |  || | ||| |    ||   ||||  |    |  |  |  ||  | || |     |||||   ||  |        |  |  |    |  || |||||||||| ||||||||||||||||| |||||  | |||||| | || || || || ||||| || || ||||| ||||||||  | ||||| ||  
gtacgtttctccttccatccaaagctttggttgattcccccctctcatgaagttttacttttcttcttcttatcttcttgtgtggttttcctagtttttcttgctgtacttcctcttatcttctccttatctcttctcctcctcatggatagatttaagatatgttccaagctcacaaactttggcgatttctacagCTTTTGGCTCCACTTCCAATCGGGTTTGCGGTGTTCCTCGTCCACCTTGCCACGATCCCCATCACTGGCACGGGCATCAACCCAGCGCGAAGTCTCGGCT

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|7233954|gb|AW569296.1|AW569296
EST:     TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCG                         ATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
genomic: TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCGgtacctattt ... aaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
EST: gi|208295980|gb|GE092230.1|GE092230
EST:     AAACGCTAGAGACTCTCACGTCCCG                         ATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
genomic: AAACGCTAGAGACTCTCACGTCCCGgtacctattt ... aaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
EST: gi|6848062|gb|AW350352.1|AW350352
EST:     TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCG                         ATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
genomic: TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCGgtacctattt ... aaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
EST: gi|19270654|gb|BM886910.1|BM886910
EST:     TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCG                         ATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
genomic: TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCGgtacctattt ... aaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
EST: gi|151402404|gb|EV272217.1|EV272217
EST:     TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCG                         ATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTT-GGTCCACTTGGCA
genomic: TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCGgtacctattt ... aaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
EST: gi|192325960|gb|FK016637.1|FK016637
EST:     TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCG                         ATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
genomic: TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCGgtacctattt ... aaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
EST: gi|21601397|gb|BQ611728.1|BQ611728
EST:     TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCG                         ATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
genomic: TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCGgtacctattt ... aaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
EST: gi|10842879|gb|BF066240.1|BF066240
EST:     TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCG                         ATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
genomic: TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCGgtacctattt ... aaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
EST: gi|192317536|gb|FK011298.1|FK011298
EST:     TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCG                         ATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
genomic: TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCGgtacctattt ... aaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
EST: gi|4285014|gb|AI440853.1|AI440853
EST:     TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCG                         ATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
genomic: TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCGgtacctattt ... aaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
EST: gi|192317537|gb|FK011299.1|FK011299
EST:     TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCG                         ATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
genomic: TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCGgtacctattt ... aaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
EST: gi|15663877|gb|BI701248.1|BI701248
EST:     TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCG                         ATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA
genomic: TCTTCTCCGCCACTGATGCCAAGAGAAACGCTAGAGACTCTCACGTCCCGgtacctattt ... aaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttttgtgtggactattatgtaataatgtggtgtttgtgtgataaaattgtagATTTTGGCTCCTCTTCCAATCGGGTTTGCTGTGTTTTTGGTCCACTTGGCAACCATTCCAATCACAGGAACTGGCATTAACCCAGCTAGGAGTCTTGGTG
             actattatgtaataat  TA-rich tract