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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTGCATTGGGTGCTGCAAGGGGGCTCGAGTACCTTCACAGAGCTGAGAGATCCATCATTTATCGAGATTTCAAGACATCAAACATCTTGCTAGATGCGgtttgtgtttcatatgttaatttttaatgtgttgataatattgctgtatttcaactacacacttaagaccttgttcggttaatcccgttacacatggatt...

Basic information

species Zea mays
transcript GRMZM2G050701_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G050701_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os06g45280.1 (Oryza sativa), 5'ss of exon 4
GATTGCATTGGGTGCTGCAAGGGGGCTCGAGTACCTTCACAGAGCTGAGAGATCCATCATTTATCGAGATTTCAAGACATCAAACATCTTGCTAGATGCGgtttgtgtttcatatgttaatttttaatgtgttgataatattgctgtatttcaactacacact-taagaccttgttcggttaatcccgttacacatggatt-
||||||  | ||||||||||||||||| || || |||||| ||||||||||||| || || |||||||||||||| ||||||||||||||| ||||||||||||||  ||||| |  ||  | | |||   ||||||  ||| |  | ||||||  ||    | || ||  |   ||   | |  |  |  ||  |   || 
GATTGCTCTAGGTGCTGCAAGGGGGCTGGAATATCTTCACGGAGCTGAGAGATCAATTATATATCGAGATTTCAAAACATCAAACATCTTGTTAGATGCGgtttgtacttcatctacta--tctgaatactttgatatcattaccctttttcaatcacttgttataggaattccatctcatcaggctctagcaactttgttc

upper sequence: GRMZM2G050701_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA05G36500.2 (Glycine max), 5'ss of exon 4
GATTGCATTGGGTGCTGCAAGGGGGCTCGAGTACCTTCACAGAGCTGAGAGATCCATCATTTATCGAGATTTCAAGACATCAAACATCTTGCTAGATGCGgtttgt-gtttcatatgttaatttttaa---tgtgttgataatatt-gctgtatttcaactacacacttaagaccttgttcggttaatcccgttacacatggatt
|||||| ||   |||||||||||| ||||  |  |||||  | || || ||  | || || ||||| ||||||||||| ||||| ||||||||||||||||||||| || |  |||  || | |  ||   |  |||  |  |||  ||| | |   |   ||| | ||    | || |       | |   ||     |     
GATTGCTTTACATGCTGCAAGGGGACTCGCTTTTCTTCATGGTGCAGAAAGGCCTATTATATATCGTGATTTCAAGACTTCAAATATCTTGCTAGATGCGgtttgttgtcttctatcgtattctggaaaactaagtttttgttatcagctttttactagagacagatttgtagctttctcaaagcgagcttcttttgttt-----

upper sequence: GRMZM2G050701_T02 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA08G03070.1 (Glycine max), 5'ss of exon 4
GATTGCATTGGGTGCTGCAAGGGGGCTCGAGTACCTTCACAGAGCTGAGAGATCCATCATTTATCGAGATTTCAAGACATCAAACATCTTGCTAGATGCGgtttgt-gtttcatatgttaatttttaatgtgttgataatattgctgtatttcaactacacacttaagaccttg--ttcggttaatcccgttacacatggatt
|||||| ||   |||||||||||||||||  |  |||||  | || || ||  | || || ||||| || |||||||| ||||| ||||||||||||||||||||| || |  ||| |||  || |      | | |  | |||     |||  |||| | ||| |      |   |||    || |  | | |   |  |  
GATTGCTTTACATGCTGCAAGGGGGCTCGCTTTTCTTCATGGTGCAGAAAGGCCTATTATATATCGTGACTTCAAGACTTCAAATATCTTGCTAGATGCGgtttgttgtctgctatctta--ttctggaaaatagtttttgttgtcagctttttactagagactgagatttgtagcttcttcaaaacgagcttctgtttaaa-

upper sequence: GRMZM2G050701_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv11s0065g00470.t01 (Vitis vinifera), 5'ss of exon 4
GATTGCATTGGGTGCTGCAAGGGGGCTCGAGTACCTTCACAGAGCTGAGAGATCCATCATTTATCGAGATTTCAAGACATCAAACATCTTGCTAGATGCGgtttgtgtttcatatgttaatttttaatgtgttgataatattgctgtatttcaactacacacttaagaccttgttcggt-taatcccgttacac-atggatt
|||||| || | ||| ||||  || || |  |  |||||  | || || || || ||||| || |||||||||||||||||||| |||||||||||||||||| ||  |   |   ||    |    |    | | | |  |   | |  |  | |  |   | || | |   |  ||  | | |     | |   ||||  
GATTGCTTTAGATGCAGCAAAAGGTCTTGCTTTTCTTCATGGTGCAGAAAGGTCTATCATATACCGAGATTTCAAGACATCAAATATCTTGCTAGATGCGgttagtcatcagttctttgtcatggttttaaataagagttctaaagcacattgagtggaagataaaaagcacatatggaatgagcttaaaatattgtgga--

upper sequence: GRMZM2G050701_T02 (Zea mays), 5'ss of exon 4
lower sequence: EFJ35779 (Selaginella moellendorffii), 5'ss of exon 3
GATTGCATTGGGTGCTGCAAGGGGGCTCGAGTACCTTCACAGAG---CTGAGAGATCCATCATTTATCGAGATTTCAAGACATCAAACATCTTGCTAGATGCGgtttgtgtttcatatgttaatttttaatgtgttgataatattgctgtatttcaactacac-acttaagaccttgttcggttaatcccgttacacatggatt
    ||  | || ||||||| ||| || | ||  ||||||   |   ||   ||  |  | ||||||||||||||||||||||| |||||  | || ||    ||  ||||                |   |   |||||  |||      |||    ||||| |||||    |  |                           
---CGCGCTCGGGGCTGCAAAGGGTCTAGCGTTTCTTCACGAGGGCGCTTCCAGGCCAGTTATTTATCGAGATTTCAAGACATCCAACATTCTTCTGGACCATgtacgtgtgc--------------tgccgctgtgataggattttccggtttagtttacacgacttattctccag---------------------------

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|71436828|gb|DR817878.1|DR817878
EST:     GATCCATCATTTATCGAGATTTCAAGACATCAAACATCTTGCTAGATGCG                         GATTATAATGCTAAGCTTTCAGACTTTGGTCTCGCAAGAACAGGTCCTAGT
genomic: GATCCATCATTTATCGAGATTTCAAGACATCAAACATCTTGCTAGATGCGgtttgtgttt ... gctgttgcagGATTATAATGCTAAGCTTTCAGACTTTGGTCTCGCAAGAACAGGTCCTAGT
EST: gi|76012348|gb|DT939518.1|DT939518
EST:     GATCCATCATTTATCGAGATTTCAAGACATCAAACATCTTGCTAGATGCG                         GATTATAATGCTAAGCTTTCAGACTTTGGTCTCGCAAGAACAGGTCCTAGT
genomic: GATCCATCATTTATCGAGATTTCAAGACATCAAACATCTTGCTAGATGCGgtttgtgttt ... gctgttgcagGATTATAATGCTAAGCTTTCAGACTTTGGTCTCGCAAGAACAGGTCCTAGT