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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaactcagttgttaccaagtgtctcctccatgatctaattgtgatagccttcatgcttaatgacttctgttttttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATTCCTGGTGCTTTTGGTTGTGGTAAAACAGTCATTAGTCAGGCTCTTTCTA

Basic information

species Glycine max
transcript GLYMA07G00430.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os06g45120.2 (Oryza sativa), 3'ss of exon 9
-----------------------------------------------gtaaactcagttgttacc-aagtgtctcctccatgatctaat-tgtgatagcct-tcatgcttaatgacttctg--ttttttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATTCCTGGTGCTTTTGGTTGTGGTAAAACAGTCATTAGTCAGGCTCTTTCTA
                                                ||   |||    |||   |||||   | | | ||  ||  | | | |||   |  | ||  | ||  | | ||   | ||| |||||||| |||||||| || || |||||||||||||| || |||||||| |||||||| || ||||||||||| ||||| |||||||||||||| ||||| |
gtacacgaagcttgctactcccagctccttcataatgtgttattttattagtgtcaaaatttaatgaagtgatgctttcctgtcctgttctatcatattttgccgtgtctcatatcctgtgaactgttttcagCGTGTACTTGATGCACTATTTCCCTCAGTTCTTGGAGGAACTTGTGCTATTCCTGGAGCATTTGGTTGTGGAAAAACTGTCATTAGTCAGGCACTTTCAA

upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 3'ss of exon 9
-------------------------------------------------------------------------------------gtaaactcagttgttaccaagtgtctcctccatgatctaattgtgatagccttcatgcttaatgacttctgttttttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATTCCTGGTGCTTTTGGTTGTGGTAAAACAGTCATTAGTCAGGCTCTTTCTA
                                                                                      ||||  |      |||    |  | ||||  |  |||| |     ||  ||   |  |  ||   ||       |  |||||||| ||||||||  | ||||||||||||||||| || || |||||||||||||| |||||||||||||| || || |||||||||||||| ||||| |
gtttgtacagaacctaccatggttctcactcataataatatgtgcttttcctccccatttttattaaggtttctgtgttgaaccactaaatgctcaaagtactgttttccccctcttttttctactca-actaatctaattcttatatacttttaaacgatcccagCGTGTACTTGATGCATTGTTCCCCTCAGTTCTTGGAGGAACATGTGCCATTCCTGGAGCTTTTGGTTGTGGAAAGACTGTCATTAGTCAGGCACTTTCCA

upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G128877_T03 (Zea mays), 3'ss of exon 6
-----------------------------------------------------------gtaaac-tcagttgttaccaagtg-tctcctccatgatctaattgtgatag-ccttcatgctta--atgacttctgttttttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATTCCTGGTGCTTTTGGTTGTGGTAAAACAGTCATTAGTCAGGCTCTTTCTA
                                                           | || |  ||    ||  ||   | | |   || | |||| | |    ||   ||| | |  |   |||  |||   |  || |||||||| || ||||| || |||||||||||||| || || |||||||| ||||| || || ||||||||||||||||| |||||||||||||| ||||| |
gtttgtctataagttgccttagcttggttgtctataattgtcagtttttgctaaaacttgaaatcgccaagcattttcagacgatgtttccctttatcttactccattaaatcttgaagtcttgtatgctttcaaatggtttcagCGTGTACTGGATGCACTATTCCCCTCAGTTCTGGGAGGCACTTGTGCTATTCCAGGGGCATTTGGTTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCA

upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G421857_T02 (Zea mays), 3'ss of exon 9
------------------------------------------------------------gtaaact--cagttgttaccaagtg-tctcctccatgatctaattgtgatagccttcatgcttaatgactt-ctgttttttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATTCCTGGTGCTTTTGGTTGTGGTAAAACAGTCATTAGTCAGGCTCTTTCTA
                                                              ||| |  ||    ||  ||  || | |    | | |||| | ||   || |||| |  |||  |  ||| |   |  || |||||||| || ||||| || |||||||| ||||| || || |||||||| ||||| || || ||||| ||||||||||| |||||||||||||| ||||| |
gtttgtctataagttgccttgagcttggttgtcaataattatcaatgttttctaaaaacttgaaattgccaagcattttcagatgatgtttcacttcatcttactgaattaaccttaagtcttgtttgcttacaaatggttgcagCGTGTACTGGATGCACTATTCCCCTCGGTTCTGGGAGGCACTTGTGCTATTCCAGGAGCATTTGGCTGTGGTAAAACTGTCATTAGTCAGGCACTTTCCA

upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G78900.2 (Arabidopsis thaliana), 3'ss of exon 9
gtaa--actcagttgttaccaagtgtctcctccatgatctaattgtgatagccttcatgcttaatgacttctgttt---tttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATTCCTGGTGCTTTTGGTTGTGGTAAAACAGTCATTAGTCAGGCTCTTTCTA
|| |  ||||  ||  | |    |         ||  ||  |||   |||    |  |||| | ||  |||| ||    ||  |||||||||||||||||||||||||| || |||||||| || || ||||||||||||||||||||||| ||||| ||||| || || |||||||| ||||| |
gtgattactcgattaattcttcttacagtggtgatagtc--atttgaatacatgtgttgctgattgctttcttttcctgttgtcagCGTGTTCTTGATGCCCTTTTCCCTTCTGTTCTTGGTGGAACCTGTGCCATTCCTGGTGCTTTTGGCTGTGGGAAAACTGTTATCAGTCAGGCACTTTCCA

upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 3'ss of exon 9
-----------gtaaactcagt-tgttaccaagtgtctcctccatgatctaattgtgatagccttcatgc---ttaatgacttctgtttt-ttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATTCCTGGTGCTTTTGGTTGTGGTAAAACAGTCATTAGTCAGGCTCTTTCTA
             ||||| | | | ||| ||    |||| || |||       ||   ||  ||| | |    ||  ||| || |||||  |  |||||||||||||||||||||||||| || ||||| || || ||||||||||| ||||| || ||||||||||| ||||||||||| ||||| ||||||||||
gtaattagcatacaaactaaatgtattatcagtattctcatctatg-----gctgctgtaagcttgaagtgtgttcctgatttttgtttcatctcagCGTGTTCTTGATGCCCTTTTCCCTTCTGTTCTCGGTGGAACTTGTGCCATACCTGGGGCATTTGGTTGTGGAAAAACAGTCATCAGTCAAGCTCTTTCTA

upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv04s0008g02580.t01 (Vitis vinifera), 3'ss of exon 9
---gtaaactcagttgttaccaagtgtctcctccatgatctaattgtgatagccttcatgcttaatgacttctgttttttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATTCCTGGTGCTTTTGGTTGTGGTAAAACAGTCATTAGTCAGGCTCTTTCTA
    |  |  | ||        ||    | |   |  | |   |||  || |   |      || |  ||| |||  | ||||||||||||| ||||| || || |||||||| || || ||||||||||| |||||||| || ||||| ||||| ||||||||||| ||||| |||||||| |
gtaatgcatcctgtcaaggtttagcccatacatgactaccattttgaaatgggtatttctgatactttcttttgtactctacagCGTGTTCTCGATGCTCTCTTTCCCTCAGTCCTGGGTGGGACTTGTGCAATTCCTGGGGCATTTGGCTGTGGGAAAACAGTCATCAGTCAAGCTCTTTCCA

upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S8_312V6.1 (Physcomitrella patens), 3'ss of exon 9
------------gtaaactcagttgttaccaagt-gtctcctccatgatctaattgtgatagccttcatgc-ttaatgacttctgtttt-----ttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATTCCTGGTGCTTTTGGTTGTGGTAAAACAGTCATTAGTCAGGCTCTTTCTA
             ||   ||   ||||   || |    || |  ||||   |  | | ||    ||  |   || ||    || |||||     ||||||||| |||| ||||| || || || || || || || || || ||||| ||||||||||| || |||||||| |||||||| |||||||||||||| || |
atttttcaatgtttatcatcttctgttttgaatttaattcatggatgagtcagctatcatgctgtttgtatgttgatccactccgttttcccctttacagCGTATTCTGGATGCTCTATTTCCATCTGTCCTCGGAGGTACCTGTGCAATTCCTGGTGCGTTCGGTTGTGGGAAAACAGTTATTAGTCAGGCTCTGTCAA

upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S44_102V6.1 (Physcomitrella patens), 3'ss of exon 9
---------------------gtaaactcagttgttac---caagtgtctcctccatgatctaattgtgatagccttcatgcttaatgacttctgttttttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATTCCTGGTGCTTTTGGTTGTGGTAAAACAGTCATTAGTCAGGCTCTTTCTA
                     ||| | | |  ||||||   || ||||    |  ||     || | |  |  | ||  || ||  || |  ||     || |||||| | || ||||| || ||||| || |||||||| || ||||| |||||||||||||| ||||| ||||| || || ||||||||||| || || ||||
ggtttcaaattcatgactgaagtatatttatatgttacttacatgtgtgctgtgaatatctcaagtattttctctttgttgattgttgtcccct-----ttgcagCGTATACTGGATGCTCTATTCCCTTCTGTTCTTGGAGGTACTTGCGCCATTCCTGGTGCATTTGGATGTGGAAAGACTGTCATTAGTCAAGCGCTCTCTA

upper sequence: GLYMA07G00430.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S10_201V6.1 (Physcomitrella patens), 3'ss of exon 9
--------------gtaaactcagttgttaccaagtgtctcctccatgat----ctaattgtgatagccttcatgcttaat--gacttctgttttttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATTCCTGGTGCTTTTGGTTGTGGTAAAACAGTCATTAGTCAGGCTCTTTCTA
               | ||| |  || |      |||  |  |  ||       | ||   | |   ||||      || |  || ||     |||| |||||  | || ||||| || || || || || ||||| || || || |||||||||||||| ||||||||||| || || ||||| ||||| || |||||||
tgtgttgggaatccatgaac-cgattatgttttcgtgctttttatattgcactgccaacgttaaattcctttgcttctattttgaattgccccttttgcagCGAATACTGGATGCTCTGTTTCCGTCTGTCCTTGGAGGTACCTGCGCCATTCCTGGTGCATTTGGTTGTGGGAAGACCGTCATCAGTCAAGCACTTTCTA

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|120532286|gb|EH260419.1|EH260419
EST:     GGCCTGTTGCATCAAAACTTGCAGCTGATACTCCTCTTCTTACTGGTCAG                         CGTGTTCTTGATGCCCTTTTCCCCTC
genomic: GGCCTGTTGCATCAAAACTTGCAGCTGATACTCCTCTTCTTACTGGTCAGgtaaactcag ... ttttttacagCGTGTTCTTGATGCCCTTTTCCCCTC
EST: gi|192311315|gb|FK003450.1|FK003450
EST:     CTTCTTACTGGTCAG                         CGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATT
genomic: CTTCTTACTGGTCAGgtaaactcag ... ttttttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATT
EST: gi|192305155|gb|FG993935.1|FG993935
EST:     GGCCTGTTGCATCAAAACTTGCAGCTGATACTCCTCT-CT-ACTGGTCAG                         CGTGTTCTTGATGCCCTTT-CCCCT
genomic: GGCCTGTTGCATCAAAACTTGCAGCTGATACTCCTCTTCTTACTGGTCAGgtaaactcag ... ttttttacagCGTGTTCTTGATGCCCTTTTCCCCT
EST: gi|209728747|gb|BW655427.1|BW655427
EST:     GGCCTGTTGCATCAAAACTTGCAGCTGATACTCCTCTTCTTACTGGTCAG                         CGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATT
genomic: GGCCTGTTGCATCAAAACTTGCAGCTGATACTCCTCTTCTTACTGGTCAGgtaaactcag ... ttttttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATT
EST: gi|192311314|gb|FK003449.1|FK003449
EST:     CTTCTTACTGGTCAG                         CGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATT
genomic: CTTCTTACTGGTCAGgtaaactcag ... ttttttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctccatgatctaattgtgatagccttcatgcttaatgacttctgttttttacagCGTGTTCTTGATGCCCTTTTCCCCTCAGTTCTTGGCGGGACTTGTGCCATTCCTGGTGCTTTTGGTTGTGGTAAAACAGTCATTAGTCAGGCTCTTTCTA
                                       cttctgttttttac  CT-rich tract
                                           tgtttttta  TA-rich tract