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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaaatcattgctgctagctttgtattttagattgaagaggtgtttattgttggttacctgctatgtgttcagtcatgtggatcctatcttagccatgtcactgagagaactttgatccgttttctttctgtagATTCACTGGTTCTCCATTTTTAATTCTTTTATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAA

Basic information

species Glycine max
transcript GLYMA08G20100.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G20100.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os12g07670.1 (Oryza sativa), 3'ss of exon 6
-----------------------------------gtgaaaatcattgctgctagctttgtattttagattgaagaggtgtttattgttggttac--ctgctatgtgttcagtcatgtggatcctatctta-gccatgtcactgagagaactttgatccgttttctttctgt--agATTCACTGGTTCTCCATTTTTAATTCTTTTATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAA
                                   | | ||      |||   |||||  |   |||  |  |||||      | ||||  ||    |  |   | | | | || | | | || | |   | |   |   |  |     ||||  || |   ||  |  |||  ||||||| |||||||||||||| |||||||| |||||||| || ||||| ||||| ||||| ||||||||||| ||||| ||||||||||||||||||||||
gtaatattttcccactccaaagaaaaaaaaactatgcgtaacatgcagctctcagcttgcttacttatgtgaaagagaaaa--aatgttaattgtaacaacagggagctgaatcgtcttgttctttttgaaagttgttcaaaggttctgacttctatgcaaatttctaatgttcagATTCATTGGTTCTCCATTTTCAATTCTTTCATGATGGTTATTTTCCTCACTGGTTTGGTTTCAATGATATTGATGCGGACATTGAGAAATGACTATGCAA

upper sequence: GLYMA08G20100.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os11g07910.1 (Oryza sativa), 3'ss of exon 6
---------gtgaaaatcattgctgctagctttgtattttagattgaagaggtgtt-tattgttggttacct-gctatgtg-----ttcagtcatgtgg---atcctatcttagccatgtcact------------------gagagaactttgatccgtt------ttctttctgtagATTCACTGGTTCTCCATTTTTAATTCTTTTATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAA
         ||   || ||    | ||   ||| | | ||    || | || | || |  | |   |||| | ||| ||||     ||     | ||||   |   ||| ||    |   | ||                   ||| ||||  | || | |      |||  | |  |||| || ||||||||||| || ||||| || |||||||| || ||| | ||||||||||| ||||||||||| ||| | ||  |||||||||| ||||| |
gtaatctttgttcgaaccaacattact--ttttatgtcttttgctggacagtttttgtgctataatttactttgctctgtggtggttttgacaaagtggtagactttattttctttaaaactctcgaggaattgaaatttacaagaaaactaagttctgctgcaaccttccatgttcagATCCATTGGTTCTCCATCTTCAATTCGTTCATGATGGTTATTTTCTTGACTGGATTGGTATCAATGATATTGATGAGGACGCTGAGAAATGATTATGCGA

upper sequence: GLYMA08G20100.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g34690.1 (Oryza sativa), 3'ss of exon 6
gtgaaaatc--attgctgc-----tagctttgtattttagattgaagag-gtgtttattgttggttacctgctatgtgttcagtcatg--tggatcctatcttagccatgtc--actgagagaacttt-----------gatccgttttctttctgtagATTCACTGGTTCTCCATTTTTAATTCTTTTATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAA
|| | ||     || ||||      ||| | ||  |  |  |||       ||| | ||||||   |  | | |  |    | | |||  | ||| ||   ||  ||||||    ||   || | ||            |||      | ||   | |||| || |||||||| || || |||||||| |||||||| ||||| || |||||  | ||||||||||| || ||||| ||  | ||||||||||||||||
gtaagaactcagtttctgcaattaaagcctggttctgcaccttggttcttatgtattttgttgccaattttccacataaaaaattatgccttgattctcaatttcccatgtatatcttgcagcatttcctctgaccacagataatccattttatggcagATCCATTGGTTCTCAATCTTCAATTCTTTCATGATGGTTATCTTTCTCACTGGGCTAGTGTCAATGATTTTGATGCGCACTCTAAGAAATGACTATGCAA

upper sequence: GLYMA08G20100.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G026231_T01 (Zea mays), 3'ss of exon 6
gtgaaaatcattgctgctagctttgtattttagattgaagaggtgtttattgttggttacctgctatgtgttcagtcatgtggatcctatcttagccatgtcactgagagaactttgatc-cgttttctttctgtagATTCACTGGTTCTCCATTTTTAATTCTTTTATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAA
              || || |||||| ||  |||           ||| | |||  |   | ||| | | |||   | | |  |     | ||||  ||   |       | || || ||   |||    | |  |||||||||||||||||||||| || ||||| |||||||| || ||||| ||||| ||||| || |||||||| ||||| || ||||||||||| ||||| |
-------------gtgata-ctttgt-ttgcagacaaccagaaactttctagtttctattcagctgtatcttc---ccttttaactaactattagaaatccta-------agctctgttcatatttctcattttcagATTCACTGGTTCTCCATTTTCAACTCTTTCATGATGGTTATTTTCCTAACTGGTTTGGTTTCGATGATATTGATGCGGACTTTGAGAAATGATTATGCCA

upper sequence: GLYMA08G20100.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G420310_T01 (Zea mays), 3'ss of exon 6
gtgaaaatcattgctgctagctttgtattttagattgaagaggtgtttattgttggttacctgctatgtgttcagtcatgtggatcctatcttagccatgtcactgagag-----aactttgatc-cgttttctttctgtagATTCACTGGTTCTCCATTTTTAATTCTTTTATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAA
                      |  || ||| | ||| |||       |  |     | |||  | | |||||||   |||   | |  | ||| | | |  | |   ||     | || || ||   |||    | |  |||||||||||||||||||||| || ||||| |||||||| || ||||| ||||| ||||| || |||||||| ||||| || |||||||| || ||||| |
---------------------gtgatacttt-gtttgtagaca-----accgacaacttcctagtttctgttcagc--tgtaccttcccttttaacta-gctattagaagtcctaagctctgttcatatttctcatttccagATTCACTGGTTCTCCATTTTCAACTCTTTCATGATGGTTATTTTCCTAACTGGTTTGGTTTCGATGATATTGATGCGGACTTTGAGAAACGATTATGCCA

upper sequence: GLYMA08G20100.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G165631_T01 (Zea mays), 3'ss of exon 5
---------------------------gtgaaaatcattgctgctag---ctttgtattttagattgaagaggtgttta-ttgttggttacctgctatgtgttcagtcatgtggatcctatcttagccatgtcactgagagaactttgatccgttttctttctgtagATTCACTGGTTCTCCATTTTTAATTCTTTTATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAA
                             | | ||| |||| ||| |   | | ||| ||   ||  |  |   || || ||  |    |   |||  || |  |    | || |      || |  ||| ||  |   |     | | |   | || |   || ||||||| |||||||| ||||| |||||||| |||||||| ||||| || |||||| | |||||||||||| | ||||| ||  | |||||||| |||||||
gtaatataggtatatatttttgcaattaaggagatctttgcagcttggctcctcgtaattacaatacagaaccagtataattacttcccattagctgcgt-tctacatgtttgaaaga-gcctgaatcatatc-ttcttaatttctagttatttcttgtacttgcagATTCATTGGTTCTCAATTTTCAATTCTTTCATGATGGTTATCTTTCTCACTGGACTAGTGTCAATGATACTGATGCGGACTCTAAGAAATGATTATGCAA

upper sequence: GLYMA08G20100.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G087212_T01 (Zea mays), 3'ss of exon 6
gtgaaaatcattgctgctagctttgtattttagattgaagaggtgtttattgttggttacctgctatgtgttcagtcatgtggatc---ctatcttagccatgtcactgagagaactttgatccgtttt-ctttctgtagATTCACTGGTTCTCCATTTTTAATTCTTTTATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAA
                                        |    ||     || | |   | ||  |   | | | ||||||| |   ||||||     | || | |   |||    ||| || |||| |  | | |||||||| ||||||||||| || ||||| || |||||||| || ||| | ||||| || |||||||||||||| ||| | ||| | |||||||| |||||||
----------------------------------------acactttgccactttggtctttcctcggctctgactaatgtggaccttgctatctgtctgaagtaattacaagatggctgacccttttttccatgtttagATTCATTGGTTCTCCATCTTCAATTCATTCATGATGGTTATTTTCTTGACTGGTTTAGTGTCAATGATATTGATGAGGACACTAAGAAATGATTATGCAA

upper sequence: GLYMA08G20100.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
gtgaaaatcattgctgctagctttgtattttagattgaagaggtgtttattgttggttacctgctatgtgttcagtcatgtggatcctatcttagccatgtcactgagagaactttgatccgttttctttctgtagATTCACTGGTTCTCCATTTTTAATTCTTTTATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAA
                          ||| |   |  ||||       |  |||   ||  | | || | ||||   || |   | | | |||    |     |||||||   ||||       |||||| || |||| |||||||||||||| ||||| || || |||||||| || ||||| || || ||||| ||||||||||| ||| | ||  | |||||||| ||||| |
-----------------------ataattattcttccaagaatctaccaaagtt--ctatattccatctcttcaag-atttctgttcaagctttataagccttctgagag---tttg-------ttctttttgcagATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA

upper sequence: GLYMA08G20100.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0035g00280.t01 (Vitis vinifera), 3'ss of exon 6
gtgaaaatcattgctgctagctttgtattttagattgaagaggtgtttattgttggttacctgctatgtgttcagtcatgtggatcctatcttagccatgtcactgagagaactttga-tccgtttt-ctttctgtagATTCACTGGTTCTCCATTTTTAATTCTTTTATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAA
                                   | |||   ||| |  | ||   ||     |   |  ||  | || | | || | |  ||  | |  |||  |  ||  | ||| | | || | |  | || ||||||| ||||||||||||||||||||||| |||||||| |||||||| ||||| |||||||||||||| |||||||||||  | |||||||||||||| |
-----------------------------------ttaaggattgtcttatattttatatgaattcaataatc--ttattttgttcatttaataaactt-ccacatattgagttgtgaatgcattctgcaatgtgcagATTCATTGGTTCTCCATTTTTAATTCTTTCATGATGGTTATCTTCCTCACTGGTTTGGTGTCAATGATCTTAATGCGAACCCTTAGAAATGACTATGCTA

upper sequence: GLYMA08G20100.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 6
gtgaaaatcattgctgctagctttgtattttagattgaagaggtgtttattgttggttacctgctatgtgttcagtcatgtggatcctatcttagccatgtcactgagagaactttgatccgttttctttctgtagATTCACTGGTTCTCCATTTTTAATTCTTTTATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAA
                           |  |||   | |      || ||      || | |||||  |  |  |  ||     |  |||   ||   | |  || ||  | |||| |        |||  || |||| || |||||||| || || ||||| || |||||||| || ||||| |||||||||||||| |||||||||||||||||  |  ||||||| ||||| |
---------------------------tgctagga-ggaattccattaatgaaaaatttcatgctacttcatttgatattgtttttgtattccagtgctttttctaagcaagctttaa--------cttggtgcagATCCATTGGTTCTCAATCTTCAATTCATTCATGATGGTTATTTTCCTCACTGGATTGGTGTCTATGATATTAATGCGAACTCTTCGAAATGATTATGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatcctatcttagccatgtcactgagagaactttgatccgttttctttctgtagATTCACTGGTTCTCCATTTTTAATTCTTTTATGATGGTCATCTTCCTTACTGGATTGGTGTCAATGATATTAATGCGAACATTGAGAAATGACTATGCAA
                               ctttgat  putative branch site (score: 5)
                                     tccgttttctttctgt  CT-rich tract
                                         ttttcttt  TA-rich tract