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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttattacccctttagaagttataaccagagagtattaaaggtgttttcaggagttatattgttcaacttttaaccgtcaaggatgtttgttgagggttggtttgaaatttctgacagtaactgatcttgtttttttgtgcctgtcctgccatgatttgccttatgttattgatttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGACACTGATTCTCCAATGCGGTATGTTGATGTCGGGATCCCTGCCAATAATA

Basic information

species Glycine max
transcript GLYMA08G17000.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G17000.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g28410.1 (Oryza sativa), 3'ss of exon 2
gttattacccctttagaagttataaccagagagtattaaaggtgttttcaggagttatattgttcaacttttaaccgtcaaggatgtttgttgagggttggtttgaaatttctgacagtaactgatcttgtttttttgtgcctgtcctgccatgatttgccttatgttattgatttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGACACTGATTCTCCAATGCGGTATGTTGATGTCGGGATCCCTGCCAATAATA
                                                                            || |    ||||   ||||   |  |||| |||        |    ||  | | | | ||| |  |||||        |||    | |||||        |||||||||| ||||||||   |||||||||||| || || ||||||||||| ||||||||||||||||| ||||| ||||| ||  | |                  
----------------------------------------------------------------------------gttatatttgttccatgagcactcttttgcaat-------ggagtttg--catatgtgtttatagctgtc-------aattgttttgatgtt--------ttgtgcagCCAATCAAGGAGTCTGCTCTTGGAAACATCCCCACTATTGCTTTCTGTGACACTGATTCTCCCATGCGCTATGTCGACATTG------------------

upper sequence: GLYMA08G17000.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os07g42450.1 (Oryza sativa), 3'ss of exon 2
gttattacccctttagaagttataaccagagagtattaaaggtgttttcaggagttatattgttcaacttttaaccgtcaaggatgtttgttgagggttggtttgaaatttctgacagtaactgatcttgtttttttgtgcctgtcctgccatgatttgccttatgttattgatttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGACACTGATTCTCCAATGCGGTATGTTGATGTCGGGATCCCTGCCAATAATA
                                                                                 | | | ||   |   ||| | |||   ||  ||  | |   ||||||     ||  ||||     ||  || |   |||||  ||| ||       ||| ||||| || |||||   ||| |||||||| ||||| || ||||| || ||||||||||| ||||||||||| ||||||||| | || || ||||| || || |
---------------------------------------------------------------------------------gtaagatttcagtatgtttgattgt--ttcttggtaat--ttgatctgccaattgagtgca----ctctcaag-cctgcctgttgtaatg------tgtacagCCAATTAAGGAGTCTGCACTTGGAAACATTCCTACCATTGCCTTCTGTGACACTGACTCTCCAATGCGCTATGTTGATATTGGTATTCCTGCTAACAACA

upper sequence: GLYMA08G17000.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g08440.1 (Oryza sativa), 3'ss of exon 2
gttattacccctttagaagttataaccagagagtattaaaggtgttttcaggagttatattgttcaacttttaaccgtcaaggatgtttgttgagggttggtttgaaatttctgacagtaac-tgatcttgtttttttgtgcctgtcctgccatgatttgcc--ttatgttat--tgatttttgt--gcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGACACTGATTCTCCAATGCGGTATGTTGATGTCGGGATCCCTGCCAATAATA
                                                                                                       ||||| |  | ||  |  |  | |  ||  ||  ||     |       ||  ||| |   |  ||||||  ||| || |||  |||||| ||||||||   |||||| ||||| || || || ||||| || |||||||| ||||| |||||||||||||| ||| |||| ||||| ||||| || |
------------------------------------------------------------------------------------------------------gtgaaaatgatcaccatgtcacggtagtgcgttggtgaattgggtacagtattgtttactgatcgtgttatcctgaattatgtctgcagCCAATCAAGGAGTCTGCTCTGGGAAACATCCCGACCATTGCCTTCTGTGACACCGATTCCCCAATGCGGTATGTCGATATCGGCATCCCGGCCAACAACA

upper sequence: GLYMA08G17000.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G145308_T01 (Zea mays), 3'ss of exon 2
gttattacccctttagaagttataaccagagagtattaaaggtgttttcaggagttatattgttcaacttttaaccgtcaaggatgtttgttgagggttggtttgaaatttctgacagtaactgatcttgtttttttgtgcctgtcctgccatgatttgccttatgttattgatttttgt--gcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGACACTGATTCTCCAATGCGGTATGTTGATGTCGGGATCCCTGCCAATAATA
                                                                                     ||     || | || |||| ||| |||| | || ||   ||    |   |  |||| ||   ||  ||| |   |     |||||   |  ||||  |||||| ||||||||   |||||| || || || || || |||||||| || |||||||| ||||| ||||||||||||||| |||| ||||| ||||| || |
-------------------------------------------------------------------------------------gtgaagagaagttttgtttcaaagttctta-agaaatatatgcattgagtgggtgc-tgcattgtgatggtgaactaatagttatgcgtaattgtttgcagCCAATCAAGGAGTCTGCTCTGGGGAACATCCCGACCATTGCTTTCTGCGACACTGACTCTCCCATGCGGTATGTTGATATCGGCATCCCAGCCAACAACA

upper sequence: GLYMA08G17000.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G380152_T01 (Zea mays), 3'ss of exon 1
gttattacccctttagaagttataaccagagagtattaaaggtgttttcaggagttatattgttcaacttttaaccgtcaaggatgtttgttgagggttggtttgaaatttctgacagtaactgatcttgtttttttgtgcctgtcctgccatgatttgcc--ttatgttattgatttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGACACTGATTCTCCAATGCGGTATGTTGATGTCGGGATCCCTGCCAATAATA
                                                                                     ||     ||   |  |||  ||| |||| ||   |        | ||| |   ||| ||   ||  ||| |   |   || |  |    |  | | ||||||| ||||||||   |||||| || || || || || ||||| || || |||||||| ||||| ||||||||||| ||| |||| ||||||||||| || |
-------------------------------------------------------------------------------------gtgaagggaatttctgttccaaagttcttacgaaa--------tatttatgaatgc-tgcagtgtgatggtggactaattgtagtgcgtaactgtttgcagCCAATCAAGGAGTCTGCTCTAGGGAACATCCCGACCATTGCCTTCTGCGACACTGACTCTCCGATGCGGTATGTCGATATCGGCATCCCTGCCAACAACA

upper sequence: GLYMA08G17000.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G092719_T01 (Zea mays), 3'ss of exon 2
gttattacccctttagaagttataaccagagagtattaaaggtgttttcaggagttatattgttcaacttttaaccgtcaaggatgtttgttgagggttggtttgaaatttctga--cagtaactgatcttgtttttttgtgcctgtcctgccatgatttgccttatgttattgatttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGACACTGATTCTCCAATGCGGTATGTTGATGTCGGGATCCCTGCCAATAATA
                                                                                    ||    |  ||  |  |||| ||| ||||||   | | |||||        |   |||    |  ||   | |||    ||||| |  | ||  || ||||||| ||||||||   |||||| || || || ||||| ||||| || ||||||||||| ||||| |||||||| || ||| |||| ||||| || || || |
-----------------------------------------------------------------------------------gtgacaat--agtttcagtttcaaagttctgaagtacttactgagtggaccctgcagtgtg-atggtgaactaattg---ttatgctggtaatcgtt-tgcagCCAATCAAGGAGTCTGCTCTGGGGAACATCCCAACCATTGCCTTCTGTGACACTGACTCTCCCATGCGGTACGTCGATATCGGCATCCCAGCGAACAACA

upper sequence: GLYMA08G17000.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G04770.1 (Arabidopsis thaliana), 3'ss of exon 2
gttattacccctttagaagttataaccagagagtattaaaggtgttttcaggagttatattgttcaacttttaaccgtcaaggatgtttgttgagggttggtttgaaatttctgacagtaactgatct-tgtttttttgtgcctgtcctgccatgatttgccttatgttattgatttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGACACTGATTCTCCAATGCGGTATGTTGATGTCGGGATCCCTGCCAATAATA
                                                                                     || | ||||  ||  |||| |  |        || | | | || |||   ||| ||  | | ||     | |||        |  ||  | ||||  ||||| ||||||||||||||| | ||||| |||||||||||||| || |||||||| |||||||||||| | | ||| ||  | || || ||||| || || |
-------------------------------------------------------------------------------------gtatattgaatgt--gttttacctcatcagttgtgatttaactgtgtaggtttttggttttgctaatgcggttt--------tggtttgtgtttgc-cagCCAATCAAGGAAGGTGCTTTGGGAAACATTCCAACTATTGCCTTCTGTGACACGGATTCTCCAATGGGATTTGTCGACATTGGTATTCCTGCTAACAACA

upper sequence: GLYMA08G17000.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G72370.2 (Arabidopsis thaliana), 3'ss of exon 2
gttattacccctttagaagttataaccagagagtattaaaggtgttttcaggagttatattgttcaacttttaaccgtcaaggatgtttgttgagggttggtttgaaatttctgacagtaactgatcttgtttttttgtgcctgtcctgccatgatttgccttatgttattgatttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGACACTGATTCTCCAATGCGGTATGTTGATGTCGGGATCCCTGCCAATAATA
                                                                                         ||  |   ||  | |||    | |   ||| | ||||      |||||||   ||       || | | | ||| |||         |  ||||||||||||||||||||||| | ||||| |||||||  |||||||| |||||||| || ||||||||| | | ||||||  | || ||||| ||||| || |
-----------------------------------------------------------------------------------------gtaaactcttcatatgattcatatactagtgattgattaatgatttttgttattg-------ataaat-gtcttgtgtg--------tgttgcagCCTATCAAGGAAGGTGCTTTGGGAAACATTCCAATCATTGCTTTCTGTGACACAGACTCTCCAATGAGATTTGTTGACATTGGTATCCCAGCCAACAACA

upper sequence: GLYMA08G17000.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv09s0002g00610.t01 (Vitis vinifera), 3'ss of exon 2
gttattacccctttagaagttataaccagagagtattaaaggtgttttcaggagttatattgttcaacttttaaccgtcaaggatgtttgttgagggttggtttgaaatttctgacagtaactgatcttgtttttttgtgcctgtcctgccatgatttgc-cttatgttattgatttttgtg--cagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGACACTGATTCTCCAATGCGGTATGTTGATGTCGGGATCCCTGCCAATAATA
                                                                                   || || ||| |    |  |||  |  ||   | |||   |||  |||| || | | |    |    ||| |||||   |||||  |    ||   |||   |||||||| ||||||| ||| || ||||| ||||||||||||||||| |||||||||||||| |||||||||||||||||  | || ||||| |||||||| |
----------------------------------------------------------------------------------tattttggttcat--ctaattt--atctttgtatagtgtatgagtttgtgttat-gagttatttagtccaggatttttacttatcatcacaataactgttttcagCCTATTAAGGAAGCTGCACTAGGAAACATTCCAACTATTGCTTTCTGTGACACTGATTCCCCAATGCGGTATGTTGACATTGGTATCCCAGCCAATAACA

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|5606682|gb|AI900780.1|AI900780
EST:     ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
genomic: ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
EST: gi|10847312|gb|BF070017.1|BF070017
EST:     ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGA-GGTGCTCTTG
genomic: ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTG
EST: gi|37996268|gb|CF807857.1|CF807857
EST:     ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
genomic: ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
EST: gi|15286900|gb|BI470791.1|BI470791
EST:     TTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
genomic: TTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
EST: gi|22541501|gb|BU091344.1|BU091344
EST:     ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTGTGTGAC
genomic: ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
EST: gi|7232750|gb|AW568103.1|AW568103
EST:     ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
genomic: ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
EST: gi|23052768|gb|BU577259.1|BU577259
EST:     ATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
genomic: ATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
EST: gi|192304648|gb|FG994940.1|FG994940
EST:     TCTTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
genomic: TCTTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
EST: gi|20075735|gb|BQ094518.1|BQ094518
EST:     ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
genomic: ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
EST: gi|27425246|gb|CA936766.1|CA936766
EST:     ATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
genomic: ATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
EST: gi|4302114|gb|AI443287.1|AI443287
EST:     ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
genomic: ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
EST: gi|22540297|gb|BU090140.1|BU090140
EST:     ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
genomic: ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
EST: gi|151405528|gb|EV275342.1|EV275342
EST:     ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
genomic: ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
EST: gi|22540179|gb|BU090022.1|BU090022
EST:     ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
genomic: ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
EST: gi|192304647|gb|FG994939.1|FG994939
EST:     ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAG                         CCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC
genomic: ACAATGAGCCTCGTCTTCTGATTCTAACTGATCCAAGAACAGATCATCAGgttattaccc ... ttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttttttgtgcctgtcctgccatgatttgccttatgttattgatttttgtgcagCCTATCAAGGAAGGTGCTCTTGGAAATATTCCAACTATTGCTTTTTGTGACACTGATTCTCCAATGCGGTATGTTGATGTCGGGATCCCTGCCAATAATA
                                      tattgat  putative branch site (score: 3)
                                            tttttgt  CT-rich tract
                                ttatgttattgatttt  TA-rich tract