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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgtcatacttggtgcatgtttagtataattgtttcatattgcatctgtttttgacgagcttctttgattttatatactgtataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTCCGTATTGTTATGATTGGAACTCTTACTGGAGCCCAATGGGGAATATATG

Basic information

species Glycine max
transcript GLYMA16G05450.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G05450.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os06g10810.1 (Oryza sativa), 3'ss of exon 4
gtgagtgtcatacttggtgca-tg-tttagtataattgtttcatattgcatctgtttttgacgagcttct---------ttgattttatatactgtataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTCCGTATTGTTATGATTGGAACTCTTACTGGAGCCCAATGGGGAATATATG
|||||| |  |||||  | || || | | |||| | ||  |  |  ||| | || |||||| |   |  |          |||||  |  ||     |  || |||| || ||||||||||| || |||||||| || || ||||| || ||||| |||||||| ||||| || || ||||||||||| ||||||||||| ||||
gtgagtttattacttattacaatgctctggtattaatgcattgtggtgc-tttgcttttgaagttttgttgatgagcaactgattacagttatgtatttctgtagGCTGTTAAGAAGCTTGGTCTCTGGGGTCTATTCACTCGTGGACTGCCCCTACGTATTGTCATGATCGGTACCCTTACTGGAGCTCAATGGGGAATTTATG

upper sequence: GLYMA16G05450.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g52860.1 (Oryza sativa), 3'ss of exon 4
-gtgagtgtcatacttggtgcatgtttagtataattgtttcatattgcatc--tgtttttgacgagcttctttgattt---tatatactgtataat-gcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTCCGTATTGTTATGATTGGAACTCTTACTGGAGCCCAATGGGGAATATATG
  ||       | ||   |  || |  | |  || | |    ||||  ||   |||| ||  |  | |  ||  || |   | | |  ||||| ||  ||||| || || |||||||| || ||||| || || ||  | || || ||||| ||||||||||||||||||||||||||||| || |||||||| || ||||
tatggcgaaagtcctgcatatatatggaat-caagtctcatgtattctattcatgttcttatcatgttaattgaatgtacatgtttgttgtattatcacagGCTGTTAAAAAGCTTGGTCTTTGGGGCCTTTTCACTAGAGGACTGCCCCTTCGTATTGTTATGATTGGAACTCTTACTGGTGCTCAATGGGGTATTTATG

upper sequence: GLYMA16G05450.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G015401_T01 (Zea mays), 3'ss of exon 4
gtgagtgt-catacttggtgcatgtttagtataattgttt-catattgcatctgtttttgacgagcttctttgattttatatactgtataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTCCGTATTGTTATGATTGGAACTCTTACTGGAGCCCAATGGGGAATATATG
|| ||  |  || |||| | ||||  |   | |  | |   | | ||| | ||  |    |   | |   |    ||  |||| | |    ||||||| || ||||||||||| || ||||||||||| ||  | || ||||| || ||||| || |||||||| || |||||||| || || |||||||| || |
gtaagcatatattcttgct-catgcatcaaacatgtatcgacgtcttgtacctactagctattggttatatattgttgctatattct----tgcagGCTGTTAAGAAGCTTGGTCTCTGGGGTCTCTTCACTAGAGGACTTCCTCTTCGTATCGTCATGATTGGTACCCTTACTGGTGCTCAGTGGGGAATTTACG

upper sequence: GLYMA16G05450.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G152827_T01 (Zea mays), 3'ss of exon 4
gtgagtgt-catacttggtgcatgtttagtataattgttt-catattgcatctgtttttgacgagcttctttgattttatatactgtataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTCCGTATTGTTATGATTGGAACTCTTACTGGAGCCCAATGGGGAATATATG
|| ||  |  || |||| | ||||  |   | |  | | | | | ||| | ||  |    |   | |   |    ||  |||| | |    ||||||| || ||||||||||| || ||||||||||| ||  | || ||||| || ||||| || |||||||| || |||||||| || || |||||||| || |
gtaagcatatattcttgct-catgcatcaaacatgtatctacgtcttgtacctactagctattggttatatattgttgctatattct----tgcagGCTGTTAAGAAGCTTGGTCTCTGGGGTCTCTTCACTAGAGGACTTCCTCTTCGTATCGTCATGATTGGTACCCTTACTGGTGCTCAGTGGGGAATTTACG

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|151407494|gb|EV277309.1|EV277309
EST:     GCAACAGTTGGTGAT                         GCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
genomic: GCAACAGTTGGTGATgtgagtgtca ... tataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
EST: gi|9439983|gb|BE440494.1|BE440494
EST:     ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGAT                         GCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
genomic: ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGATgtgagtgtca ... tataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
EST: gi|7591542|gb|AW707273.1|AW707273
EST:     ATAATCTTGTCTCTTTTCTGAACAATGCAAGAGGAGCCACAGTTGGTGAT                         GCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGGCTTCCCCTC
genomic: ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGATgtgagtgtca ... tataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
EST: gi|192324693|gb|FK018759.1|FK018759
EST:     ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGAT                         GCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
genomic: ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGATgtgagtgtca ... tataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
EST: gi|19938613|gb|BQ081803.1|BQ081803
EST:     ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGAT                         GCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
genomic: ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGATgtgagtgtca ... tataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
EST: gi|10237660|gb|BE806548.1|BE806548
EST:     ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGAT                         GCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
genomic: ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGATgtgagtgtca ... tataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
EST: gi|23052981|gb|BU577472.1|BU577472
EST:     ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGAT                         GCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
genomic: ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGATgtgagtgtca ... tataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
EST: gi|21888708|gb|BQ741921.1|BQ741921
EST:     ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGAT                         GCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
genomic: ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGATgtgagtgtca ... tataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
EST: gi|13481245|gb|BG510588.1|BG510588
EST:     ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGAT                         GCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
genomic: ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGATgtgagtgtca ... tataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
EST: gi|7588312|gb|AW704110.1|AW704110
EST:     ATAATCTTGTCTCTTTTCTGAACAATGCANAAGGAGCAACAGTTGGTGAT                         GCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTTCACTC
genomic: ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGATgtgagtgtca ... tataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
EST: gi|22526003|gb|BU084814.1|BU084814
EST:     ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGAT                         GCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
genomic: ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGATgtgagtgtca ... tataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
EST: gi|23728600|gb|BU762362.1|BU762362
EST:     ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGAT                         GCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
genomic: ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGATgtgagtgtca ... tataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
EST: gi|17022287|gb|BM093321.1|BM093321
EST:     ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGAT                         GCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC
genomic: ATAATCTTGTCTCTTTTCTGAACAATGCAAAAGGAGCAACAGTTGGTGATgtgagtgtca ... tataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catattgcatctgtttttgacgagcttctttgattttatatactgtataatgcagGCGGTGAAGAAGCTTGGCCTGTGGGGTCTCTTTACCCGTGGTCTTCCCCTCCGTATTGTTATGATTGGAACTCTTACTGGAGCCCAATGGGGAATATATG
                            tttgattttatatact  TA-rich tract