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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagctttgcttttaaaattgaaatggtgttgtttatggtttggtgaattgctatgtattcatccatgttggtcctaccatagctctgccactgagaattttgctcctttgttttctttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA

Basic information

species Glycine max
transcript GLYMA05G30210.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os12g07670.1 (Oryza sativa), 3'ss of exon 6
------------------------------------------gtacagcttt--gcttttaaaattgaaatggtgttgtttatggtttggtg-aattgctatgtattcatccatgttggtcctaccatagctctgccactgagaattttgctcctttgtt--ttctttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
                                           | ||||| |  ||||    | ||        |      |  |||   || ||   |   |   | |  | | ||| || |     |  |    ||   ||  | |  || || ||    ||  |  |    |||||||||||||||||||||| || |||||||||||||| || ||||| ||||||||||| ||||||||||||||||| ||  ||||||||||||||||||
gtaatattttcccactccaaagaaaaaaaaactatgcgtaacatgcagctctcagcttgcttacttatgtgaaagagaaaaaatgttaattgtaacaacagggagctgaatcgtcttgttctttttgaaagttgttca--aaggttctgacttctatgcaaatttctaatgttcagATTCATTGGTTCTCCATTTTCAATTCTTTCATGATGGTTATTTTCCTCACTGGTTTGGTTTCAATGATATTGATGCGGACATTGAGAAATGACTATGCAA

upper sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g34690.1 (Oryza sativa), 3'ss of exon 6
--------------------------gtacagctttgcttttaaaattgaaatggtgttgtttatggtttggtgaattgctatgtattcatccatgttggtcctaccatagctctgccactgagaattttgctcctt----tgttttctttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
                          |    | | |||   |    |   |    | |||||     |||     ||    |  ||| | |  ||  |     | ||||   | |    | |    |  |    |      |  |   ||||     |||| ||||||||||| || || || |||||||||||||| ||||| || |||||  | ||||||||||| |||||||| ||||| ||||||||||||||||
gtaagaactcagtttctgcaattaaagcctggttctgcaccttggttcttatgtattttgttgccaattttccacataaaaaattatgccttgattctcaatttcccatgtatatcttgcagcatttcctctgaccacagataatccattttatggcagATCCATTGGTTCTCAATCTTCAATTCTTTCATGATGGTTATCTTTCTCACTGGGCTAGTGTCAATGATTTTGATGCGCACTCTAAGAAATGACTATGCAA

upper sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os11g07910.1 (Oryza sativa), 3'ss of exon 6
-------------------------------------------gtacagctttgcttttaaaattgaaatggtgttgtttatggtttggtgaattgctatgtattcatccatgttggtcctaccatagctctgccact-----gagaattttgctcctttgttttctttt-tccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
                                           | |||| |||  |  || |||| |  | |   |||    | ||||   || || ||    || ||     ||    ||  |   |   ||  | |     || || |  | ||   ||    |||   |    |||| |||||||||||||| || || || ||||||||||| || ||| | ||||| ||||| ||||||||||||||| | || ||||||||||| ||||| |
gtaatctttgttcgaaccaacattactttttatgtcttttgctggacagtttttgtgctataatttactttgctctgtggtggttttgacaaagtggtagac-tttattttctttaaaactctcgaggaattgaaatttacaagaaaactaagttctgctgcaaccttccatgttcagATCCATTGGTTCTCCATCTTCAATTCGTTCATGATGGTTATTTTCTTGACTGGATTGGTATCAATGATATTGATGAGGACGCTGAGAAATGATTATGCGA

upper sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G026231_T01 (Zea mays), 3'ss of exon 6
gtacagctttgcttttaaaattgaaatggtgttgtttatggtttggtgaattgctatgtattcatccatgttggtcctaccatagctctg-ccactgagaatttt--gctcc-tttgttttctttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
                     ||| |   ||||            |  | || ||| || |  || ||  |   || | || |    ||  | | |   |||  |  ||||  ||  | ||  |  |    ||||||| |||||||||||||| ||||||||||||||||| || ||||| ||||||||||| || |||||||||||||| ||| |||||||||| ||||| |
--------------------gtgatactttgtttgcagacaaccagaaactttcta-gtttctattcagctgtatcttcccttttaactaactattagaaatcctaagctctgttcatatttctcattttcagATTCACTGGTTCTCCATTTTCAACTCTTTCATGATGGTTATTTTCCTAACTGGTTTGGTTTCGATGATATTGATGCGGACTTTGAGAAATGATTATGCCA

upper sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G420310_T01 (Zea mays), 3'ss of exon 6
gtacagctttgcttttaaaattgaaatggtgttgtttatggtttggtgaattgctatgtattcatccatgttggtcctaccatagctct-gccactgagaatttt--gctcc-tttgttttctttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
                     ||| |   ||||  |        |   | || ||| || |   | ||  |    | | || |    || || | |   | |  |  ||||  ||  | ||  |  |  | ||||||| |||||||||||||| ||||||||||||||||| || ||||| ||||||||||| || |||||||||||||| ||| ||||||| || ||||| |
--------------------gtgatactttgtttgtagacaaccgacaacttccta-gtttctgttcagctgtaccttcccttttaactagctattagaagtcctaagctctgttcatatttctcatttccagATTCACTGGTTCTCCATTTTCAACTCTTTCATGATGGTTATTTTCCTAACTGGTTTGGTTTCGATGATATTGATGCGGACTTTGAGAAACGATTATGCCA

upper sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G165631_T01 (Zea mays), 3'ss of exon 5
-----------gtacagctttgcttttaaaa------ttgaaatggtgttgtttatggtt----tggtgaattgctatgtattcatccatgttggtcctaccatagctctgccactgag----aattttgctcctttgttttct---ttttccct--------agATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
            || |  |||||  ||||        ||| |     | |  |  |  ||    |   |||    |||  |||  | |   || |        ||  | |   |  |||    |||  |      ||  |||||   | || | |        |||||||||||||||| ||||| || |||||||||||||| ||||| || |||||  | |||||||||||| ||||||| ||||| |||||||| |||||||
gtaatataggtatatatttttgcaattaaggagatctttgcagcttggctcctcgtaattacaatacagaaccagtata-attacttcccattagctgcgttctacatgtttgaaagagcctgaatcatatcttcttaatttctagttatttcttgtacttgcagATTCATTGGTTCTCAATTTTCAATTCTTTCATGATGGTTATCTTTCTCACTGGACTAGTGTCAATGATACTGATGCGGACTCTAAGAAATGATTATGCAA

upper sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G087212_T01 (Zea mays), 3'ss of exon 6
gtacagctttgcttttaaaattgaaatggtgttgtttatggtttggtgaattgctatgtattcatccatgttggtcctaccatagctctg--ccactgagaattttgctcctttgttttctttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
                                  |||     || |    || ||  |   | |   |||| |  | | | ||   ||||    | | | ||  | |||      |||| |   |   |||||||||||||||||||| || || || ||||||||||| || ||| | |||||||| |||||||||||||||||| | || || |||||||| |||||||
------------------------------acactttgccactttggtctttcctcggctctgactaatgtggaccttgctatctgtctgaagtaattacaagatggctgaccc-ttttttccatgtttagATTCATTGGTTCTCCATCTTCAATTCATTCATGATGGTTATTTTCTTGACTGGTTTAGTGTCAATGATATTGATGAGGACACTAAGAAATGATTATGCAA

upper sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 6
gtacagctttgcttttaaaattgaaatggtgttgtttatggtttggtgaattgctatgtattcatccatgttgg--tcctaccatagctctgccactgagaattttgctcctttgttttctttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
                        |||  |  |    |   | |    || | |||| | | ||||  |    |  | ||     |||| |     | ||  || ||    |||||| | |||      |||| || ||||||||||| |||||||| ||||||||||| || ||||| || |||||||| ||||||||||||||| | ||||| |||||||| ||||| |
----------------------ataattattcttccaagaatctaccaaagttctatat-tccatctcttcaagatttctgttcaagcttta----taagccttctgagagtttgttctttttgc----agATCCACTGGTTCTCCATCTTTAACTCGTTCATGATGGTTATTTTCCTCACCGGTTTGGTCTCAATGATATTGATGAGGACTCTCAGAAATGATTATGCGA

upper sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0035g00280.t01 (Vitis vinifera), 3'ss of exon 6
gtacagctttgcttttaaaattgaaatggtgttgtttatggtttggtgaattgctatgtattcatccatgttggtcctaccatagctctgc-cactgagaattttgctcctttgttttctttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
                     | ||    |||  | |||  ||   |||||| | ||    | ||   ||||  |  ||  | |  ||  |  | ||||    |||    |   || |    |   | ||||||||||||||||||||||||| |||||||||||||| |||||||| |||||||||||||||||||| || |||||||| || |||||||||||||| |
---------------------ttaaggattgtcttatatt-ttatatgaatt-caataatcttattt-tgttcatt-taataaacttccacatattgag----ttgtgaatgcattctgcaatgtgc-agATTCATTGGTTCTCCATTTTTAATTCTTTCATGATGGTTATCTTCCTCACTGGTTTGGTGTCAATGATCTTAATGCGAACCCTTAGAAATGACTATGCTA

upper sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 6
gtacagctttgcttttaaaattgaaatggtgttgtttatggtttggtgaattgctatgtattcatccatgttggtcctaccatagctctgccactgagaattttgctcctttgttttctttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
                     ||  | |  |   |  |    ||  ||||    |   |  |  | ||| ||| |  |    | |   |    | | |  ||||        | |||   ||     |||| ||||||||||| || || || || ||||||||||| || ||||| ||||| |||||||| |||||||| |||||||||||  ||||||| ||||| |
---------------------tgctaggaggaattcca----ttaatgaaaaatttcatgctacttcat-ttgatattgtttttg---tattccagtgctttttctaagcaagctttaacttggtgcagATCCATTGGTTCTCAATCTTCAATTCATTCATGATGGTTATTTTCCTCACTGGATTGGTGTCTATGATATTAATGCGAACTCTTCGAAATGATTATGCCA

upper sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ15096 (Selaginella moellendorffii), 3'ss of exon 6
gtacagctttgcttttaaaattgaaatggtgttgtttatggtttggtgaattgctatgtattcatccatgttggtcctaccatagctctgccactgagaattttgctcctttgttttctttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
                                                            ||  |   |||  ||| |   | |  | |       | | |  |||    ||||  | | ||     ||||||| ||||| ||  | || ||||| |||||||||||||| || || |||||  ||||||| |||||| | ||| |||| |||| |||||||||||| |
-----------------------------------------------------------gtttgttgttgtctgtctttgtacaagttt-------aaactcctgc----ttgtggtatcttcgtgcagATTCACTGGTTTTCGCTCTTCAACTCGTTCATGATGGTCATATTTCTGACTGGCCTGGTGTCTATGATACTCATGAGAACGCTGAAAAATGACTATGCCA

upper sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ37593 (Selaginella moellendorffii), 3'ss of exon 6
gtacagctttgcttttaaaattgaaatggtgttgtttatggtttggtgaattgctatgtattcatccatgttggtcctaccatagctctgccactgagaattttgctcctttgttttctttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
                                                            ||  |    ||  ||| |   | |  | |       | | |  |||    ||||  | | ||     ||||||| ||||| ||  | || ||||| |||||||||||||| || || |||||  ||||||| |||||| | ||| |||| |||| |||||||||||| |
-----------------------------------------------------------gtttgttgtcgtctgtctttgtacaagttt-------aaactcctgc----ttgtggtatcttcgtgcagATTCACTGGTTTTCGCTCTTCAACTCGTTCATGATGGTCATATTTCTGACTGGCCTGGTGTCTATGATACTCATGAGAACGCTGAAAAATGACTATGCGA

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|193408884|gb|FK371138.1|FK371138
EST:     TCGGGCGTCGCTTTGATGTCTGCCTGGACCATCCTTTCTTTGAGCATCAG                         ATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACT
genomic: TCGGGCGTCGCTTTGATGTCTACCTGGACCATCCTTTCTTTGAGCATCAGgtacagcttt ... ttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctaccatagctctgccactgagaattttgctcctttgttttctttttccctagATTCATTGGTTCTCCATTTTTAACTCTTTCATGATGGTCATCTTCCTTACTGGTTTGGTGTCAATGATATTGATGCGAACTCTGAGAAATGACTATGCAA
                          ttttgctcctttgttt  CT-rich tract
                                   tttgttttcttttt  TA-rich tract