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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTTGGCTCCTCTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaacttttcttactcacatgtacgcgatcagtttggttcatttttctcaaagaaaatgctctttcatacagcatttcatggcagattattgatatcaaacatcactattaaaataacttagctctgttcatttttgtggtggtcatttgaaag

Basic information

species Glycine max
transcript GLYMA20G39050.3
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G39050.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os03g20310.4 (Oryza sativa), 5'ss of exon 8
ACTTGGCTCCTCTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaacttttcttactcacatgtacgcgatcagtttggttcatttttctcaaagaaaatgctctttcatacagcatttcatggcagattattgatatcaaacatcactattaaaataacttagctctgttcatttttgtggtggtcatttgaaag
 |||||  | || || || ||||| || |||||||| ||||||||||||||||||||||||||||| ||||| ||||| ||||||   ||| |    ||||||| | | | | |    |||||    |   | ||       |||          ||||  ||| | ||     |||   |||||    ||  |        ||  || | | |                                         
CCTTGGTCCATCAGGATCTTCAGGGAACGTGGCAAACTACATGGGTCAAATGGCTATGGCCATGGGCAAACTTGGGACCCTTGAGAATTTCCTCCGTCAGgtaagcgtctttcaaaatcatgtg---gcatatttcaaactgtttc--------gaaattttctgttatctctgattc--tggcaagc-atgcactcttgttattgctgtaaca-----------------------------------------

upper sequence: GLYMA20G39050.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os07g48820.2 (Oryza sativa), 5'ss of exon 9
ACTTGGCTCCTCTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaacttttcttactcacatgtacgcgatcagtttggttcatttttctcaaagaaaatgctctttcatacagcatttcatggcagattattgatatcaaacatcactattaaaataacttagctctgttcatttttgtggtggt-catttgaaag
 || || || || || || || || |||||||| || ||||||||||| ||||| |||||||||||||||||||| || || |||   ||| ||   |||| ||   | |    ||   | ||  |  |||      |||| || | |   |  | |  | | | | |    |   ||| || |||||  | |   |   |       ||||||     |    | ||   ||| || ||||      ||||  ||
TCTCGGTTCATCAGGGTCTTCTGGGAATGTGGCGAACTACATGGGTCAGATGGCAATGGCCATGGGTAAACTAGGAACGCTCGAGAATTTCCTTTGCCAGgcaagtatcttcaccttctaagt--gtcatc------gttc-ttctgcctgacaacatggatttattaactggtgattcgtgtcagat-gtcgcctttgca----gtgattaaagc--ttagattttgactattcttttggtttcatttttgtcag

upper sequence: GLYMA20G39050.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os01g17260.1 (Oryza sativa), 5'ss of exon 9
ACTTGGCTCCTCTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaacttttcttactcacatgtacgcgatcagtttggttcatttttctcaaa---gaaaatgctctt-------tcatacagcatttcatg-gcagattattg-atatcaaacatcactattaaaataacttagctctgttcatttttgtggtggtcatttgaaag
 ||||| || ||||| ||| | || || |||||||| |||||||| |||||||| ||||||||||| || || ||||| ||||||   ||| ||   ||||||   | || || ||| |     |      ||| |   | || | | | ||    |   ||  ||||        |||  || || |  |  || ||||   | | |  | |  |||  |||      ||| |   || || || |||         || ||||  
TCTTGGTTCTTCTGGATCAACGGGAAACGTGGCAAACTACATGGGCCAAATGGCAATGGCCATGGGGAAGCTTGGGACCCTTGAGAATTTCCTTCGCCAGgtaccatgttttttctctctctctcttttctagtgtaaattatgtatgtaaaccttgggtatagtcttatgatgtccatggagtatgtagtatgcggattcgagtaaactatagttcaaaattgtgt--actaaatcctctttatcttttccac---tatatgaag-

upper sequence: GLYMA20G39050.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G361847_T04 (Zea mays), 5'ss of exon 9
ACTTGGCTCCTCTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaacttttcttactcacatgtacgcgatcagtttggttcatttt-tctcaaagaaaatgctctttcatacagcatttcatggcagattattgatatcaaacatcactattaaaataacttagctctgttcatttttgtggtggtcatttgaaag
 || ||  |  | ||||| ||||| ||||||||||| ||||||||||| ||||| ||||||||||| ||||| ||||| || |||   ||  ||   || |||| | | |  |    |  | |  | |  | ||   ||| ||||  | |    | | | |   ||||  | || | || |||     ||||| ||||  |                                                       
TCTCGGTCCAGCAGGTTCTTCAGGAAATGTGGCAAACTACATGGGTCAGATGGCCATGGCCATGGGCAAACTCGGGACGCTAGAGAATTTTCTTCGCCAAgtaagcatctactttgtatctttgtgggg-cggtactgtttatttggttttgctgcataag---tttcgaatagtaatt-atgtt---ttatttatatgcag------------------------------------------------------

upper sequence: GLYMA20G39050.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G030280_T02 (Zea mays), 5'ss of exon 8
ACTTGGCTCCTCTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaa-acttttcttactcacatgta-cgcgatcagtttggttcatttttctcaaagaaaatgctctttcatacagcatttcatggcagattattgatatcaaacatcactattaaaataacttagctctgttcatttttgtggtggtcatttgaaag
 |||   || ||||| ||| |||| ||||||||||| ||||||||||||||||| ||||| ||||| ||||| || || ||||||   ||| ||   ||||||  |    ||||   || ||| | |    | |  | | |  |   ||||   |   | ||  ||  |   ||  |         ||| |  | || |   |  |||                                                 
TCTTTCGTCTTCTGGATCAACAGGAAATGTGGCAAACTACATGGGTCAAATGGCCATGGCTATGGGAAAACTTGGAACGCTTGAGAATTTCCTTCGTCAGgtattaaccctcttttccaaatgcatctttgtgacatagataaagggttctgtgaatgattgtactccctcccaaaa---------agaatgctcatcttgcatttcag------------------------------------------------

upper sequence: GLYMA20G39050.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
ACTTGGCTCCTCTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaacttttctta---ctcacatgtacgcgatcagtttggttcatttttctcaaagaaaatgctctttcatacagcatttcatggcagattattgatatcaaacatcactattaaaataacttagctctgttcatttttgtggtggtcatttgaaag-------------------------
 |||||  | || || || || || || |||||||| || |||||||||||||||||||||||||| ||||| || ||||| |||   ||| ||   ||||||||||||||  |   |||  |     || | || || | ||  || ||      |   |   || |    | | ||| ||||   |    ||  || |    |   ||| |||| | ||  ||  | |||   | || ||| |  |   |   |||                         
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctccaaccctggcaaacatttagttttgttgtttctgttgttgactgtcatagggagatcatgtcatttgattcgatacatttt---ctctacttttaaga-aatatatgtatgtagctcttggtgttcctagctctgaagacttttggtgttctattatcgttag

upper sequence: GLYMA20G39050.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G125243_T02 (Zea mays), 5'ss of exon 12
ACTTGGCTCCT-CTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaacttttcttactcacatgtacgcgatcagtttggttcatttttctcaaagaaaatgctctttcatacagcatttcatggcagattattgatatcaaacatcactattaaaataacttagctctgttcatttttgtggtggtcatttgaaag
 |||||  ||| ||||  | || |||||||| |||||||||||||| |||||||| ||||| ||||| ||||| || || ||||||   ||  |    |||||      | |  | |||  || ||  | ||| ||     || | | |       |  | |  |    | | |  |    |   ||    || ||||  | |                                                     
-CTTGGGCCCTGCTGGACCTTCTGGCAATGTTGCAAATTACATGGGACAAATGGCGATGGCTATGGGAAAACTTGGCACTCTTGAGAACTTTCTACGACAGgtttgtcatgcaaaatca--tggacttgctcatttcataacactgtgccatctttattttccttaatttgctggctactctttgaggccttttatatagacc-----------------------------------------------------

upper sequence: GLYMA20G39050.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G174284_T01 (Zea mays), 5'ss of exon 9
ACTTGGCTCCTCTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaacttttct-tactcacatgtacgcgatcagtttggttcatttttctcaaagaaaatgctctttcatacagcatttcatggcagattattgatatcaaacatcactattaaa-ata-acttagctctgttc----atttttgtggtggtcatttgaaag
 |||||  | || || || || || || || ||||| || |||||||||||||||||||||||||| ||||| || ||||| |||   ||| ||   ||||||||||||    ||||   |     |  |    ||| |||    | | ||    |     ||  |    | | ||| ||||   |    ||  || |    |||   ||  ||| ||  |  |||||||||      | || |||  |  |    | |   
CCTTGGTCCATCAGGATCTTCCGGAAACGTCGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGTCAGgtaaactttctgatacttctaaccctgtcaaacatttagttttgctgtttctgttattg-actgatagggatatcatgtcatttgattcgatacattttccccatttttaagaaatatgtatgtagctctgtctgaatacttctgttctatttgcctcag--

upper sequence: GLYMA20G39050.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G019907_T01 (Zea mays), 5'ss of exon 6
ACTTGGCTCCTCTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaacttttcttactcacatgtacgcgatcagtttggttcatttttctcaaagaaaatgctctttcatacagcatttcatggcagattattgatatcaaacatcactattaaaataacttagctctgttcatttttgtggtggtcatttgaaag
 || ||| |  ||||  | || |||||||| |||||||||||||| |||||||| ||||| ||||| ||||| || || || |||   ||  |    |||||      | |  | ||||  | ||  | ||| ||     || | |  |      |  | |  |  | | | |    || | | || |  || || |  |  |                                                    
CCTGGGCCCTGCTGGACCTTCTGGCAATGTTGCAAATTACATGGGACAAATGGCGATGGCTATGGGAAAACTTGGCACCCTAGAGAACTTTCTACGACAGgtttgtcatgcaaaatcac--ggacttgctcatttcataacagtgtgttatctttattttccttaacttgctgttactctttg-aggtcttttatgtagacta----------------------------------------------------

upper sequence: GLYMA20G39050.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv13s0084g00660.t01 (Vitis vinifera), 5'ss of exon 11
ACTTGGCTCCTCTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaacttttcttactcacatgtacgcgatcagtttggttcatttttctcaaagaaaatgctctttcatacagcatttcatggcagattattgatatcaaacatcactattaaaataacttagctctgttcatttttgtggtggtcatttgaaag
 |||||||| ||||||||||| || ||||||||||| || |||||||||||||| ||||||||||| || || ||||| ||||||||||| |||   ||||||     ||| | || |  |            |||| ||   ||| || | |  ||        || |  | ||| | ||||    ||  ||||     | |    ||  |||   |                                     
TCTTGGCTCTTCTGGTTCATCTGGAAATGTGGCAAACTATATGGGTCAAATGGCCATGGCCATGGGAAAGCTGGGGACTCTTGAGGGGTTTATTCGTCAGgta-----ttccttctaaagt------------tttgattttctttcctgacaataagaataaaatcttg-atcatattatggtctgtttatgatcaaccagaaagttaggaaatgga-------------------------------------

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|214009483|gb|DB990647.1|DB990647
EST:     TGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAG                         GCTGACAATTTGCGCCAGCAGACTTTGCAACAAATTCACCGCATATTGACA
genomic: TGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaactttt ... catttgaaagGCTGACAATTTGCGCCAGCAGACTTTGCAACAAATTCACCGCATATTGACA
EST: gi|254329430|gb|GR838983.1|GR838983
EST:     TGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAG                         GCTGACAATTTGCGCCAGCAGACTTTGCAACAAATTCACCGCATATTGACA
genomic: TGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaactttt ... catttgaaagGCTGACAATTTGCGCCAGCAGACTTTGCAACAAATTCACCGCATATTGACA
EST: gi|209724885|gb|BW669574.1|BW669574
EST:     TGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAG                         GCTGACAATTTGCGCCAGCAGACTTTGCAACAAATTCACCGCATATTGACA
genomic: TGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaactttt ... catttgaaagGCTGACAATTTGCGCCAGCAGACTTTGCAACAAATTCACCGCATATTGACA
EST: gi|254329429|gb|GR838982.1|GR838982
EST:     TGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGG-TTCATTAAGCAG                         GCTGACAATTTGCGCCAGCAGACTTTGCAACAA-TTCACCGCATATTG
genomic: TGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaactttt ... catttgaaagGCTGACAATTTGCGCCAGCAGACTTTGCAACAAATTCACCGCATATTG
EST: gi|192300890|gb|FG992950.1|FG992950
EST:     TGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAG                         GCTGACAATTTGCGCCAGCAGACTTTGCAACAAATTCACCGCATATTGACA
genomic: TGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaactttt ... catttgaaagGCTGACAATTTGCGCCAGCAGACTTTGCAACAAATTCACCGCATATTGACA