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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGTAAGTGAGTACGCTGTTTGGAGAGGTGATGCAGGTAGAGGAAGTCTTCTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctcgtttgaaatcattggttctaggttaccttctgattaaaccctgagtctccgcggataatttttcacatgttatctttgctcgttgagatcacatgaccctacagagttctgcctgctctagtgtcactacgaagataatcttaaatgtgagttggtgaccttttgtttttatttgcag

Basic information

species Zea mays
transcript GRMZM2G077299_T01
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G077299_T03 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os12g03470.2 (Oryza sativa), 5'ss of exon 14
TTGTAAGTGAGTACGCTGTTTGGAGAGGTGATGCAGGTAGAGGAAGTCTTCTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctcgtttgaa--atcattggtt-ctaggttaccttctgattaaaccctgagtctccgcggataatttttcacatgttatct-ttgctcgttgagatcacatgaccctacagagttctgcctgctctagtgtcactacgaagataatcttaaatgtgagttggtgaccttttgtttttatttgcag
|||| ||||| || |||||||||||| |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||| |||| || ||  ||  ||| ||  || |  |||    |      | |    ||||  | |  |  ||    || |  |   ||||  |      ||  || | ||          | ||||   || |    ||                                                       
TTGTCAGTGAATATGCTGTTTGGAGAAGTGATGCAGGTAGAGGAAGTCTACTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgttatctttccttgaaacaatcttttctttccgggtcgtgtgacagatcacatttgagctttcctgcgtagggctttat-taagatctactaacaaatgcaatgagatatttactgtaacttcttgttggttctttgcag----------------------------------------------------

upper sequence: GRMZM2G077299_T03 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os11g03730.3 (Oryza sativa), 5'ss of exon 14
TTGTAAGTGAGTACGCTGTTTGGAGAGGTGATGCAGGTAGAGGAAGTCTTCTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctcgtttgaaatcattggttctaggttaccttctgattaaaccctgagtctccgcggataatttttcacatgttatctttgctcgttgagatcacatgaccctacagagttctgcctgctctagtgtcactacgaagataatcttaaatgtgagttggtgaccttttgtttttatttgcag
|||| ||||| || |||||||||||| |||||||||||||||||||||| ||||||||||||||||| || |||||||||||||||||||||||||||||||||||| ||  ||||||  ||   ||||                     ||| ||||       | |    |||||| | | |||| |||  || |     | | |  ||   || ||| |   |   | ||  ||    |||||| || |   ||| | ||     | | ||| || |  ||||||
TTGTCAGTGAATATGCTGTTTGGAGAAGTGATGCAGGTAGAGGAAGTCTACTTGCTTCATTGGCAGAGGCAGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctttc-cttgaaacaatcttttct-------------------ttctgggtctt-----gtgacagatcacatttgagctttcctc--tggg----tagggctttattaagatctactaaca--aatgcaac----aagatattcat---tgtaactt-----cttgttggttct--ttgcag
















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|32915958|gb|CF020770.1|CF020770
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|213170538|gb|FM181869.1|FM181869
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|116814377|gb|EC856917.1|EC856917
EST:     CTTGCTTCATTGGCGGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32834805|gb|CD974483.1|CD974483
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32838656|gb|CD978334.1|CD978334
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32846404|gb|CD986085.1|CD986085
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|12045517|gb|BF727656.1|BF727656
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAA
EST: gi|32834343|gb|CD974021.1|CD974021
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32915959|gb|CF020771.1|CF020771
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32847114|gb|CD986795.1|CD986795
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32836113|gb|CD975791.1|CD975791
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32846779|gb|CD986460.1|CD986460
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32833806|gb|CD973484.1|CD973484
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32846254|gb|CD985935.1|CD985935
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32865761|gb|CF005443.1|CF005443
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32833276|gb|CD972954.1|CD972954
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGCACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32847472|gb|CD987153.1|CD987153
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32846575|gb|CD986256.1|CD986256
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32839169|gb|CD978850.1|CD978850
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|17970148|gb|BM276913.1|BM276913
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|71769432|gb|DR967369.1|DR967369
EST:     TTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: TTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32847067|gb|CD986748.1|CD986748
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32833492|gb|CD973170.1|CD973170
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATTT                         TTTCATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|22489289|gb|BU049212.1|BU049212
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|71441725|gb|DR822775.1|DR822775
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAGGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32833419|gb|CD973097.1|CD973097
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAAT-T                         TGTCATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32847159|gb|CD986840.1|CD986840
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32832289|gb|CD971967.1|CD971967
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32834130|gb|CD973808.1|CD973808
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32847619|gb|CD987300.1|CD987300
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32833120|gb|CD972798.1|CD972798
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGATTAG                         -GTACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATG
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTG-ACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATG
EST: gi|32847167|gb|CD986848.1|CD986848
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGCTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32847649|gb|CD987330.1|CD987330
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
EST: gi|32846820|gb|CD986501.1|CD986501
EST:     CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAG                         TGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA
genomic: CTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctc ... ttatttgcagTGACATTGTTTCCATGGCAAGTTACGCGCCACTATTCGTAAACGACAATGA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGTAAGTGAGTACGCTGTTTGGAGAGGTGATGCAGGTAGAGGAAGTCTTCTTGCTTCATTGGCAGAAGCTGCTTTCCTTACTGGACTGGAGAAGAATAGgtgatctctcgtttgaaatcattggttctaggttaccttctgattaaaccctgagtctccgcggataatttttcacatgttatctttgctcgttgagatcacatgaccctacagagttctgcctgctctagtgtcactacgaagataatcttaaatgtgagttggtgaccttttgtttttatttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA