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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATCTTGCTGGGAGTAAAAGGTTGGCATTGTTTCTTGACTATGACGGAACACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgttttccctaagtccttttaaaattagcagtccagtgcaatttcagttcgctttctaaacattgtattcacagatgcgtgctgcag

Basic information

species Zea mays
transcript GRMZM2G178546_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G178546_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os10g40555.1 (Oryza sativa), 5'ss of exon 2
TGATCTTGCTGGGAGTAAAAGGTTGGCATTGTTTCTTGACTATGACGGAACACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgttttc------cctaagtccttttaaaattagcagt-ccagtgcaatttcagttcgc---tttctaaacattgtattc-acagatgcgtgctgcag
| |||||||  |  ||||||| |||||| |||| ||||| ||||| ||||| ||||||||||||||||||||||||||||||||| |||||||||| |||||||  |||       | || || ||||     | |  | |  ||||| || || |  | ||   ||| |||| ||| ||||| ||||             
TAATCTTGCCAGAGGTAAAAGATTGGCACTGTTCCTTGATTATGATGGAACTCTTTCACCGATTGTGGACAATCCTGAAAATGCAGTAATGTCTGACGAGgtattctttttctcctcttatgttctttagtcctcattattatcagtgaaaatttatctggcagttttgtaaatattctattcgacag-------------

upper sequence: GRMZM2G178546_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA04G13880.1 (Glycine max), 5'ss of exon 3
TGATCTTGCTGGGAGTAAAAGGTTGGCATTGTTTCTTGACTATGACGGAACACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgttttccctaagtccttttaaaattagcagtccag---tgcaatttcagttcgctttctaaacattgta--ttcacagatgcg-tgctgcag---------
  |   |||     | || ||  | ||||||||||| || ||||| || || |||||||| |||||||| ||||||||   ||| || ||||| ||  | ||||||  | |     ||  |||  | ||||  ||||||   | || ||  |  |   | |    |  ||||   ||  | |||  |   ||| |          
CAACTGTGCAAAAGGGAAGAGAATAGCATTGTTTCTGGATTATGATGGGACTCTTTCACCCATTGTGGATAATCCTGACTCTGCTTTCATGTCAGACAATgtatgtaatgc-----tctcttttgatttagt-gtccagattttcagttagatgtttttcttctcatgttgttgctttgctgatctgaccctgaaacttctgcag

upper sequence: GRMZM2G178546_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA06G47630.2 (Glycine max), 5'ss of exon 2
TGATCTTGCTGGGAGTAAAAGGTTGGCATTGTTTCTTGACTATGACGGAACACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgttttccctaagtccttttaaaattagcagtccag---tgcaatt---tcagttcgctttctaaacattgtattcacagatgcgtgctgcag---------
  |   |||     | || ||  | ||||||||||| || ||||| ||||| |||||||| |||||||||||||||||   ||| || ||||| ||  | ||||||  | |    ||| |||   | ||||  ||||||   | |||||   |   ||   | |||    |||   || |        | ||| |          
CAACTGTGCAAAAGGAAAGAGAATAGCATTGTTTCTGGATTATGATGGAACTCTTTCACCCATTGTGGACAATCCTGACTGTGCTTTCATGTCAGACAATgtatgtaatgct---gtctttt--gatttagt-gtccagattttcaattaggtgtttttcttctcttgttattaccttgatgatctgatcctgaaacttctgcag

upper sequence: GRMZM2G178546_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA09G36570.1 (Glycine max), 5'ss of exon 3
TGATCTTGCTGGGAGTAAAAGGTTGGCATTGTTTCTTGACTATGACGGAACACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgt-----tttccctaagtccttttaaaattagcagtccagtgcaatttcagttcgctttc--taaacattg--tattcacagatgcgtg----ctgcag
  |   |||     | |||||  | || |||||| | || ||||| ||||| ||||||||||||||||| ||||||||   ||| || ||||| ||  | ||||||     | ||| |  ||    |    || |  |   || |    ||| | |    | ||  |   | |||  || | |||  |  ||     ||||||
AAACTATGCAAAAGGGAAAAGAATTGCGTTGTTTATGGATTATGATGGAACTCTTTCACCGATTGTGGATAATCCTGACTGTGCTTTCATGTCCGACAATgtatgtggtactctccttgggtttactatccataataacatcaattgggttttattctattctcatttttctttggctaattacaattctgttaactctgcag

upper sequence: GRMZM2G178546_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT5G51460.2 (Arabidopsis thaliana), 5'ss of exon 2
TGATCTTGCTGGGAGTAAAAGGTTGGCATTGTTTCTTGACTATGACGGAACACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgttttcc-ctaagtccttttaaaattagcagtccagtgcaatttcagttcgctttctaaacattgtattcacagatgcgtgctgcag----------------
   | ||||     | |||||  | |||||||||||||| |||||||| |||||||| || ||||| ||  | |||||   |||||  |||||   ||  ||| |||||   ||     || ||||| | |   | | |   ||  |  | || |   |  |  | |  || | |   ||  |     |                  
GAGTTTTGCAAAAGGCAAAAGAATAGCATTGTTTCTTGATTATGACGGGACACTTTCGCCTATTGTTGAGGAACCTGATTGTGCATACATGTCAAGTGCTgtaagtttttaactttcctctattaaattcaattg-ctaaaacagatcaaatttgtgattcat-cctcataatgaattatatggttcacgcctttttacatgtttag

upper sequence: GRMZM2G178546_T02 (Zea mays), 5'ss of exon 3
lower sequence: PP1S32_182V6.1 (Physcomitrella patens), 5'ss of exon 3
TGATCTTGCTGGGAGTAAAAGGTTGGCATTGTTTCTTGACTATGACGGAACACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgttt-tccctaagtccttt-taaaattagcagtccagtgcaatttcagttcgctttctaa-acattgta-ttcacagatgcgtgc-tgcag-----
  | |   |    |  ||     | |   | || ||||| |||||||||||||||||||| ||||||||  ||||||||   || || ||||| |  |||||  ||   |   |||||  ||| | ||   |        ||   | |   |  |  |   | | ||   ||  ||   | |||      | |||     
CAAGCAGTCGCACAACAAGCAAATCGTGGTATTCCTTGATTATGACGGAACACTTTCACCCATTGTGGAGGATCCTGAACGGGCTTTCATGTCAGCCGAGgtcagtacatttttaagtattttgttaagcgatggaaagggtagtactgacggccattcagtgatacccggtgctttttaaatgttcatattcagtaaat

upper sequence: GRMZM2G178546_T02 (Zea mays), 5'ss of exon 3
lower sequence: PP1S333_42V6.1 (Physcomitrella patens), 5'ss of exon 2
TGATCTTGCTGGGAGTAAAAGGTTGGCATTGTTTCTTGACTATGACGGAACACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgttttccctaagtccttttaaaattagcagtc--cagtgcaatttcagttcgctttctaaacattgt--attcacagatgcgtgctgcag------------------------------------------------
| | | ||| |  |  ||     | |   | |||||||||||||| |||||||||||||| ||||||||  |||| ||    || || ||||| |  |||||  ||    | |      ||||  ||| || ||    || | | |     | ||       ||| || |   |||     ||| |  |  | |                                                
TAAGCATGCGGTTAAAAAGCAAATTGTGGTATTTCTTGACTATGATGGAACACTTTCACCCATTGTGGAGGATCCGGAGCGGGCCTTTATGTCAGCCGAGgtcagtacgtcttgtagtgttttggaatgagaaggaaacatttccacgctcgatcagcactgaaagatagatgatttctcaatgaggtcaaccgtgtagccggtactaaaagtacttttttattttattttatgctcaacag

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|149101959|gb|EE287477.2|EE287477
EST:     CACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAG                         A
genomic: CACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgttttc ... cgtgctgcag-
EST: gi|149101959|gb|EE287477.2|EE287477
EST:     CACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAG                         A
genomic: CACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgttttc ... cgtgctgcag-
EST: gi|93281239|gb|EB673503.1|EB673503
EST:     CACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAG                         TGAGGCATGCGGCAT
genomic: CACTTTCACCGATTGTGGACAATCCTGAAAATGCATTAATGTCTGATGAGgtatgttttc ... cgtgctgcagTGAGGCATGCGGCAT