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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGCAGCGGCTGGGAGCAAGATGGTGCAGCGCCTCACCTACCGGAAGCGGCACAGCTACGCCACCAAATCGAACCAGACCCGCGTCGTCAAGACACCTGgtaagatcagcgcactcgcttggtcgatcccacgttgtttctgttcgtgcaggttgtagagataggattctcgctgatttgttcatgttttggttaggag...

Basic information

species Zea mays
transcript GRMZM2G152573_T01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G152573_T04 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA01G05740.1 (Glycine max), 5'ss of exon 1
GAAGCAGCGGCTGGGAGC-AAGATGGTGCAGCGCCTCACCTACCGGAAGCGGCACAGCTACGCCACCAAATCGAACCAGACCCGCGTCGTCAAGACACCTGgtaa---gatcag---cgcact-----cgctt--ggtcgatcccacgtt-gtttctgttcgtgcag-gttgtagagataggattctcg---ctgatttgttc--------atgttttggttaggag----------------
  |||     |      | |||||||||||||| ||||||||||| |||||||||||||| |||||||| || |||||   | | |||||||| || ||||||||    |||     | ||||      ||||  | |||   | |  || |||| ||||  ||    ||| || | | |   || | |    | ||| ||||        | || ||| || |                   
-GAGCGTGATCCATTGACGAAGATGGTGCAGCGTCTCACCTACCGCAAGCGGCACAGCTATGCCACCAAGTCCAACCAACACAGGGTCGTCAAAACCCCTGgtaatcaaatccctccctcactgattatgcttcggatcggaacaatttttgtttttgtttttgttttgttttaaaaaaaaagtttttggtattaattggttctgctgggtacgtcttgtttggttctgtgggaataatgcag

upper sequence: GRMZM2G152573_T04 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA08G41280.1 (Glycine max), 5'ss of exon 1
-GAAGCAGCGGCTGGGAGCAAGATGGTGCAGCGCCTCACCTACCGGAAGCGGCACAGCTACGCCACCAAATCGAACCAGACCCGCGTCGTCAAGACACCTGgtaagatcagcgcactcgcttggtcgatcccacg--ttgtttctgttcgtg-caggttgtagagataggattct-cgctgattt---gttcatgttttggttaggag--------------------
 |||| ||| | | |||| |||||||||||||| ||||||||||| ||||| |||||||| ||||||||||| ||||||  | | ||||||||||| || |||||    |      ||||| |    |   |     || ||     ||  | |  ||||| |   |  |   |  ||  |  |        || ||||  |  |  |                    
GGAAGAAGCTGATCGGAG-AAGATGGTGCAGCGTCTCACCTACCGCAAGCGCCACAGCTATGCCACCAAATCCAACCAGCACAGAGTCGTCAAGACTCCCGgtaaataaactctcttcgctcgcctcacatcgtcgtttattctcactcacggcgcgttgtcgttttgcgccgccgcgagggctccaaaaatatattttaatgtgcggttgctgattgttgaatgcag

upper sequence: GRMZM2G152573_T04 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA18G14980.1 (Glycine max), 5'ss of exon 1
-GAAGCAGCGGCTGGGAGCAAGATGGTGCAGCGCCTCACCTACCGGAAGCGGCACAGCTACGCCACCAAATCGAACCAGACCCGCGTCGTCAAGACACCTGgtaagatcagcgcactcgcttggt-cgatcccacgttgtttctgtt--cgtgcaggttgtagagataggattctcg---ctgatttgttcatgttttggttaggag----------
 |||| ||| | |  ||| |||||||||||||| ||||||||||| || || |||||||| || |||||||| ||||||  | | ||||||||||| || |||||  |     | ||||||| |     ||     || |  ||  |  ||||  | |||    |  ||  ||||       || |      ||   ||| | |  |          
GGAAGAAGCTGATCCGAG-AAGATGGTGCAGCGTCTCACCTACCGCAAACGCCACAGCTATGCTACCAAATCCAACCAGCACAGAGTCGTCAAGACTCCCGgtaaactgtcttcgctcgcttcgcatcgtcgtttattctcactcatggcgtgtcgtttgcgccgcgagtgttctaaaaatagactgtaatgtgcggtggctggttgttgaatgcag

upper sequence: GRMZM2G152573_T04 (Zea mays), 5'ss of exon 1
lower sequence: GLYMA02G11920.1 (Glycine max), 5'ss of exon 1
GAAGCAGCGGCTGGGAGC-AAGATGGTGCAGCGCCTCACCTACCGGAAGCGGCACAGCTACGCCACCAAATCGAACCAGACCCGCGTCGTCAAGACACCTGgtaagatcagcgcactcgcttggtcgatcccacgttgtttctgttcgtgcaggttgtagagataggattctcgctgatttgttc---atgtt--ttggttaggag------------------------------------
  |||     |      | |||||||||||||| ||||||||||| ||| |||||||||| ||||||||||| |||||   | | |||||||| || ||||||||  |||   | |||  | ||     | |||    | |  | |  |||   | | |  |  |  ||| | |||  ||  ||     | ||  ||||||  ||                                     
-GAGCGTGATCCATTGACGAAGATGGTGCAGCGTCTCACCTACCGCAAGAGGCACAGCTATGCCACCAAATCCAACCAACACAGGGTCGTCAAAACCCCTGgtaa--tcaaatccctc-ttcggaacccctcactcactcttcgattatgct--tcgaatcggaacaatttttgctttttaattttgggtattaattggttctgacgggtatgttgtgtttggtgatgtgggaataatgcag

upper sequence: GRMZM2G152573_T04 (Zea mays), 5'ss of exon 1
lower sequence: AT1G26880.1 (Arabidopsis thaliana), 5'ss of exon 1
GAAGCAGCGGCTGGGAGCAAGATGGTGCAGCGCCTCACCTACCGGAAGCGGCACAGCTACGCCACCAAATCGAACCAGACCCGCGTCGTCAAGACACCTGgtaagatcagcgcactcgcttggtcgatcccacgttgtttctgttcgtgcaggttgtagagataggattctc-----gctgatttgttcatgttttggttaggag---------------------
 ||  ||     | |   || ||||||||||| ||    ||||||  ||| |||||||||||||||||||||||||||  |||  |||||||||| || |||    |       ||  |||  ||  | ||  | | | |    ||      | | |||    |  ||||||      | ||| ||||| |  |   || | | |                     
AAAAGAGAAAAGGAGGCGAAAATGGTGCAGCGTCTTGTTTACCGGTCGCGACACAGCTACGCCACCAAATCGAACCAGCACCGTATCGTCAAGACTCCAGgtccctttcttcttctt-cttcttc--ttccttgatatcttcaatctcctctgctttagtctcataattctctaatcaccgatctgttcttcatagtgtaatgtgtgttgggattgttgatttcag

upper sequence: GRMZM2G152573_T04 (Zea mays), 5'ss of exon 1
lower sequence: Vv14s0108g00850.t01 (Vitis vinifera), 5'ss of exon 1
-GAAGCAGCGGCTGGGAGCAAGATGGTGCAGCGCCTCACCTACCGGAAGCGGCACAGCTACGCCACCAAATCGAACCAGACCCGCGTCGTCAAGACACCTGgtaagatcagcgca-----ctcgcttggtcgatcccacgttgtttctgttcgtgc---aggttgtagagataggatt-ctcgctgatttgttcatgttttggttaggag
 | ||  | |  ||   | || ||||| ||||| ||||| ||||| || ||||| ||||| ||||||||||| ||||||  | | |||||||| || |||||| |       | |     || | ||  ||  | |  |  | |||   | | |     || || |   | |    |   | | ||||  |  | ||| ||         
GGGAGGTGAGAGTGCTTG-AAAATGGTCCAGCGTCTCACATACCGCAAACGGCATAGCTATGCCACCAAATCTAACCAGCACAGGGTCGTCAAAACCCCTGgtgattcttctgtaaaacccttggtttttcttttcttcagtattttattgcatctgttagtttatttgggtgatttggtttgttgatcggaacgtgtatt---------

upper sequence: GRMZM2G152573_T04 (Zea mays), 5'ss of exon 1
lower sequence: PP1S76_47V6.1 (Physcomitrella patens), 5'ss of exon 1
GAAGCAGCGGCTGGGAGCAAGATGGTGCAGCGCCTCACCTACCGGAAGCGGCACAGCTACGCCACCAAATCGAACCAGACCCGCGTCGTCAAGACACCTGgtaagatcagcgcactcgcttggtcgatcccacgtt------gtttctgttcgtgc---aggttgtagagataggattctcgc------tgatttgtt--catgttttggttaggag------------------------------------------
   |  | |   ||   ||  |||||||||||  | |||||| ||  ||| ||| |||| ||||||||||| |||||||| || || |||||||| |||||| |||    | | | |   |  || |   ||||||      ||||     ||      || || |   | |    |    ||      |||   |||   |||      |   |||                                          
TGTGTGGGGTGGGGTGACACCATGGTGCAGCGTTTGACCTACAGGCGGCGCCACTGCTATGCCACCAAATCCAACCAGACTCGTGTGGTCAAGACCCCTGgtgagagtctctcccccttctcttccagtgcacgttttaggagttttaccccgcatcgaagctttttacggtgaattgaatgcaagggatgaggcgttattatggaccaatcgagagttgatgtctggattgagctttgcgttgttttgtgggatatag

upper sequence: GRMZM2G152573_T04 (Zea mays), 5'ss of exon 1
lower sequence: PP1S200_25V6.1 (Physcomitrella patens), 5'ss of exon 1
GAAGCAGCGGCTGGG--AGCAAGATGGTGCAGCGCCTCACCTACCGGAAGCGGCACAGCTACGCCACCAAATCGAACCAGACCCGCGTCGTCAAGACACCTGgtaagatcagcgcactcgcttggtcgatcccacgttgtttctgttcgtgcaggttgtagagataggattctcgc-tgatttgttcatgttttggttaggag----
     | |  ||||     ||  ||||| |||||  | || |||||    || ||| |||| |||||||| ||||||||||||||||| |||||||| || ||||    ||  ||  || ||   ||  |  | ||   |||||   | | | | ||   |       |||   || |  | | ||   |||| ||    |      
--GCTATCTCCTGGTCTGTCACCATGGTTCAGCGATTAACGTACCGTCGCCGCCACTGCTATGCCACCAAGTCGAACCAGACCCGCGTGGTCAAGACCCCAGgta----cactgccttccctctctctttgtcgcgaattttctaggc-tacggatttcggcttagatatttcggcatcgtgttttggggtttggggccagcattgt

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|76284642|gb|DV024210.1|DV024210
EST:     GCACAGCTACGCCACCAAATCGAACCAGACCCGCGTCGTCAAGACACCTG                         GTGGGAAACTTGTGTACCAGTACACCAAGAAGCGCGCGAGCGGACCGAAGT
genomic: GCACAGCTACGCCACCAAATCGAACCAGACCCGCGTCGTCAAGACACCTGgtaagatcag ... tgctgattagGTGGGAAACTTGTGTACCAGTACACCAAGAAGCGCGCGAGCGGACCGAAGT