Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgctcccattattttattgcacctctcccttcacaacgttgattgaacaataaaaggattctattttgaggaacccttaatcgataactgatttctttttttgtgtgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTGGATGGGAAGCAGAAGATAATGTTCGCAATGACCTCCATCAAGG

Basic information

species Glycine max
transcript GLYMA10G36880.3
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G36880.3 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os07g07709.1 (Oryza sativa), 3'ss of exon 1
gtgcgctcccattattttattgcacctctcccttcacaacgttgattgaacaataaaaggattctattttgaggaacccttaatcgataactgatttctttttttgtgtgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTGGATGGGAAGCAGAAGATAATGTTCGCAATGACCTCCATCAAGG
||  |||||  ||  | |   ||| ||| |||||  ||  | |   |   |        | | |||    |||||| |     |   |   ||||||               |||||||| ||| | |||   ||||||||||||||||| |||||| |||||||||| ||||||||||||||||||||||| ||||||||  | |||||||||||||
gtaagctcc-gttcctctcccgcatctc-ccctttgcagtggtctctttgcgc-----aggtgctaaggggaggaatcgcgtgt--gtgtttgattt---------------ttgcagTCGCTGATCGCGGGGGAGGATTTCCAGCACATCCTGCGTCTGCTGAACACGAACGTGGATGGGAAGCAGAAGATCATGTTCGCGCTCACCTCCATCAAGG

upper sequence: GLYMA10G36880.3 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g58050.1 (Oryza sativa), 3'ss of exon 1
gtgcgctcccattattttattgcacctctcccttcacaacgttgattgaacaataaaaggattctattttgaggaacccttaatcgataactgatttctttttttgtgtgtgtt---gcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTGGATGGGAAGCAGAAGATAATGTTCGCAATGACCTCCATCAAGG
           | |  || | || |   || | || |  |  |    |           |||||   ||   |  || | |  ||  | ||||| |    ||   |  | |||    |||||| ||| | ||    ||||| ||||||||||| |||||| |||||||||||||||| ||||||||||||||||| ||||||||  | |||||||||||||
----------gtaaccttctcgctcgcttctcctctcctccattcccgtctcc------gattcgccttctcgtgacgcctcctc--tgactgactctcgttggcgcttctgtccccgcagTCGCTGATCGCCGGGGAGGACTTCCAGCACATCCTGCGTCTGCTGAACACCAACGTCGATGGGAAGCAGAAGATCATGTTCGCGCTCACCTCCATCAAGG

upper sequence: GLYMA10G36880.3 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G178341_T02 (Zea mays), 3'ss of exon 1
gtgcgctcccattattttattgcacctctcccttcacaacgttgattgaacaataaaaggattctattttgaggaacccttaatcgataactgatttctttttttgtgtgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTGGATGGGAAGCAGAAGATAATGTTCGCAATGACCTCCATCAAGG
            ||   |  | ||| | | ||| | |  ||    | |     |     |||  | || |   |    || | ||  | ||   | |             ||  |||||| ||| | ||   |||||| ||||| || ||||||||| |||||||||||||||||||||||||||||||||| |||||||| ||||||||||| ||||
-----------gtaacctcctacacttattcctccccgccgactctcgt----tgtgcagatgtttttgtatcgtgttctgattccgtgacgactgt-------------tgccgcagTCGCTGATCGCCGGCGAGGACTTCCAACATATTCTGCGTCTGCTGAACACCAACGTGGATGGGAAGCAGAAGATCATGTTCGCCATGACCTCCATAAAGG

upper sequence: GLYMA10G36880.3 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G130544_T02 (Zea mays), 3'ss of exon 1
gtgcgctcccattattttattgcacctctcccttcacaacgttgattgaacaataaaaggattctattttgaggaacccttaatcgataactgatttctttttttgtgtgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTGGATGGGAAGCAGAAGATAATGTTCGCAATGACCTCCATCAAGG
           | |  || |    || ||| |||| |  | ||| ||                    | ||  ||    || || | |  |||| | | |    | |||| |  |||||| ||| | ||    ||||| |||||||| || |||||| |||||||||||||||||||||||||||||||||| |||||||| |||||||| |||||||
----------gtaaccttct----ccactcacttctccccattgctt---------------ctcggtgtgcagatatttttatagtttcctgactccgtgacgtctgtg-gccgcagTCGCTGATCGCCGGGGAGGACTTCCAGCATATCCTGCGTTTGCTGAACACCAACGTGGATGGGAAGCAGAAGATCATGTTCGCCATGACCTCAATCAAGG

upper sequence: GLYMA10G36880.3 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G062911_T01 (Zea mays), 3'ss of exon 1
gtgcgctcccattattttattgcacctctcccttcacaacgttgattgaacaataaaaggattctattttgaggaacccttaatcgataactgat-ttctttttttgtgtgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTGGATGGGAAGCAGAAGATAATGTTCGCAATGACCTCCATCAAGG
                                              |   |  ||     ||| | |  | | |   |    ||   |  ||||    |  ||    |  |  |||||||| ||| | |||   ||||| || |||||||| |||||| |||| ||||||||||||||||| ||||||||||| ||||| ||  | |||||||||||||
--------------------------------------gtaagagctcctccctacccc-attttgtcatcacgggtcggcgattagt--ctgacacgcggttggcattggctttgcagTCGCTGATTGCGGGGGAGGACTTTCAGCACATCCTGCGTTTGCTTAACACCAACGTGGATGGCAAGCAGAAGATCATGTTTGCCCTCACCTCCATCAAGG

upper sequence: GLYMA10G36880.3 (Glycine max), 3'ss of exon 1
lower sequence: AT4G09800.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgcgctcccattattttattgcacctctcccttcacaacgttgattgaacaataaaaggattctattt-tgaggaacccttaatcgataactgatttctttttttgtgtgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTGGATGGGAAGCAGAAGATAATGTTCGCAATGACCTCCATCAAGG
                  | || |  || |   | |     |  |||   |  |       ||   ||| || | ||    | || | | | |    | || | ||||   |  || |||||||||| || || ||||| || || |||||||| |||||| |||| || || || ||||| ||||||||||| ||||| ||  | ||||| ||||| |
------------------aatgtaa-tcgcgagtaagttgataaattttgcgttttttttgtttagtttatgtgaaattactgatgggttaattgaattttgtgttgttgattgtgtagTCTCTGGTTGCAAATGAGGAGTTTCAACACATTCTTCGTGTGTTGAATACTAATGTTGATGGTAAGCAGAAGATTATGTTTGCCCTTACCTCTATCAAAG

upper sequence: GLYMA10G36880.3 (Glycine max), 3'ss of exon 1
lower sequence: AT1G22780.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------------------------gtgcgctcccattattttattgcacctctcccttcacaacgttgattgaacaataaaaggattc--------tattttgaggaa-cccttaatcgat----aactga----------tttctttttttgt----gtgtgt-tgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTGGATGGGAAGCAGAAGATAATGTTCGCAATGACCTCCATCAAGG
                                        ||| |   | | |||||   | | | |||  ||  ||  | || ||     ||   ||  ||         | ||||  | |  ||||||  ||||     |||||          ||| |||||| ||    |||||| || ||||||| || ||||||||||| || ||||| |||||||||||||| || || || || ||||||||||| || || ||||| ||  ||||||| |||||||
gtacgattatcgttcttcaactcttgtctggttctccaattgctcgtgcttcattttgc-gtatcgctcgtttttcattgctggttttgggattggagttttaagctcaaatgttttttgtattcccttacacgatttgcgactgacggatctgttttttttttttcgtattcgtgtgtgtgtagTCTCTAGTTGCGAACGAGGAGTTTCAGCATATTCTGCGTGTGCTCAATACTAATGTCGATGGGAAGCAAAAAATTATGTTTGCTTTGACCTCAATCAAGG

upper sequence: GLYMA10G36880.3 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0072g00060.t01 (Vitis vinifera), 3'ss of exon 2
gtgcgctcccattattttattgcacctctcccttcacaacgttgattgaacaataaaaggattctattttgaggaacccttaatcgataactgatttctttttttgtgtgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTGGATGGGAAGCAGAAGATAATGTTCGCAATGACCTCCATCAAGG-------------------
           | ||   |  |   |  || |||| |    ||  ||      || || |  | || ||| | | ||  ||  || ||             ||| || || ||| ||||| || ||||||||||| || |||||||||||  ||||||| |||||||| |||||||||||||| |||||||||||||| ||  | || || |||||||                   
----------gtaatc--agggtttcaatctcttctcgttcttcctt------tagaatgcctataatttaatgtacgtttgttcaat------------ctttcgt-tgggttacagtcgctagtggcgaacgaagAATTCCAGCACATATTGCGTGTCCTGAACACGAACGTGGATGGGAAACAGAAGATAATGTTTGCCCTCACGTCAATCAAGGGTATTGGGAGGCGATTCGC

upper sequence: GLYMA10G36880.3 (Glycine max), 3'ss of exon 1
lower sequence: PP1S242_94V6.1 (Physcomitrella patens), 3'ss of exon 1
gtgcgctcccattattttattgc---acctctcccttcacaacgttgatt---gaacaataaaaggattctattttgaggaacccttaatcgataact-----gatttctttttttgtgtgtg--------ttg----cagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTGGATGGGAAGCAGAAGATAATGTTCGCAATGACCTCCATCAAGG
|||||    |||   ||  |  |    |  ||  | ||    ||||  ||   | || || | |   || | ||||      ||     | |   |||     | ||  |   | ||||  ||        |||    ||||| ||  | |||  |||||| || ||||||||||| |||||||||||||| ||||| |||||    |||||||| ||||| ||  |||| || || ||||
gtgcgtgttcatcgcttcctccccatgcagctttcgtcgactcgtttctttgcgtacgatgagattgttatttttttttcttccaaatgttgtacacttctagggttcgtgcatctgtgactgaaagctggttgtgaacagTCGCTCATTGCGGGCGAGGAATTTCAGCACATTCTTCGTGTGCTGAACACTAACGTCGATGGACGTCAGAAGATCATGTTTGCCCTGACTTCGATTAAGG

upper sequence: GLYMA10G36880.3 (Glycine max), 3'ss of exon 1
lower sequence: PP1S215_71V6.1 (Physcomitrella patens), 3'ss of exon 1
--------------gtgcgctcccattattttattgcacctctc----ccttcacaacgttgattgaacaataaaaggattctattttgaggaacccttaatcgataactgatttctttttttgtgtgtgtt--------gcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTGGATGGGAAGCAGAAGATAATGTTCGCAATGACCTCCATCAAGG
                 ||  |   | ||| |  ||| | |||     | |   ||  | |   |      |      ||| ||| || |||         |   | |||||    |  || ||||||| |         |||||| ||  | |||  |||||| |||||||||||||| ||||| ||||| |||||||| ||||||   |||||||| ||||| ||  | |||||||||||||
gtgtgtctgatctgcctcgtccttgtcattgtgctgctcttcttggctcttattcagtgctatcttcgtgttcgtgaaattttatgtttagggtttacgtctttgtgactgaaagttggttgtgtgtgtttccgatgttggcagTCGCTCATTGCGGGCGAGGAGTTCCAGCACATTCTTCGTGTTCTGAATACCAACGTCGATGGGCGTCAGAAGATTATGTTTGCCCTAACCTCCATCAAGG

upper sequence: GLYMA10G36880.3 (Glycine max), 3'ss of exon 1
lower sequence: EFJ22352 (Selaginella moellendorffii), 3'ss of exon 1
gtgcgctcccattattttattgcacctctcccttcacaacgttgattgaacaataaaaggattctattttgaggaacccttaatcgataactgatttctttttttgtgtgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTGGATGGGAAGCAGAAGATAATGTTCGCAATGACCTCCATCAAGG
                                                         | ||||||  | ||  |     | ||   ||         | | | || ||      |||||||||||||   || ||||| |||||||||||||| |||||||| ||||| || ||||| |||  ||||||||| ||||||||  |||| ||||||||||
-------------------------------------------------------gtatgattct--tgtgttgggtgttgaaataatcctccggcgcctctgttttg------gcagTCTCTGGTGAGCAATGAGGAGTTCCAGCACATTCTTCGTGTGCTCAACACGAATGTGGACGGGCGGCAGAAGATTATGTTCGCGCTGACTTCCATCAAGG

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|48575743|gb|CO036554.1|CO036554
EST:     ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATGgtgcgctccc ... tgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|192324486|gb|FK016767.1|FK016767
EST:     ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATGgtgcgctccc ... tgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|48575205|gb|CO036287.1|CO036287
EST:     ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATGgtgcgctccc ... tgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|298186675|gb|HO037308.1|HO037308
EST:     ATCGTCGGCGGCGTAACCCTCCAACAACAGCACTTCCTCGTCAGAAAATG                         TCTCTGGTGGCGAACGAG
genomic: ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATGgtgcgctccc ... tgtgttgcagTCTCTGGTGGCGAACGAG
EST: gi|298183861|gb|HO029074.1|HO029074
EST:     ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATGgtgcgctccc ... tgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|10710703|gb|BF010421.1|BF010421
EST:     CCAACAACAACACTTCCTCGTCAGAAAATG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: CCAACAACAACACTTCCTCGTCAGAAAATGgtgcgctccc ... tgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|207827202|gb|GD798311.1|GD798311
EST:     ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATGgtgcgctccc ... tgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|208267691|gb|GE066796.1|GE066796
EST:     ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATGgtgcgctccc ... tgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|193395262|gb|FK358679.1|FK358679
EST:     CGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: CGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATGgtgcgctccc ... tgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
EST: gi|254336488|gb|GR842667.1|GR842667
EST:     ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATG                         TCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC
genomic: ATCGTCGGCGGCGTAACCCTCCAACAACAACACTTCCTCGTCAGAAAATGgtgcgctccc ... tgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctattttgaggaacccttaatcgataactgatttctttttttgtgtgtgttgcagTCTCTGGTGGCGAACGAGGATTTCCAGCACATTCTGCGTGTGCTGAACACCAACGTGGATGGGAAGCAGAAGATAATGTTCGCAATGACCTCCATCAAGG
                         aactgat  putative branch site (score: 3)
                               tttctttttttgtgt  CT-rich tract
                            tgatttcttttttt  TA-rich tract