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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCTTGCATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttatcacgtaatactgttgaagtaaaaggaatattagcagtatattttttttggtgagctattcctctatgccttgacaattaacctacacctgtacctatag

Basic information

species Zea mays
transcript GRMZM2G070422_T01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G070422_T01 (Zea mays), 5'ss of exon 11
lower sequence: LOC_Os08g23810.2 (Oryza sativa), 5'ss of exon 11
GTGCTTGCATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttatcacgtaatactgttgaagtaaaaggaatattagcagtatattttttttggtgagctattcctctatgccttgacaattaacctacacctgtacctatag
|| ||||| || ||||||||  | ||||| ||||||||||||||||||||||| ||||||| |||  ||  |||  | | ||    |  ||  ||   ||||| | ||  | ||      || |  |   ||||||  |  || ||       |     |       
GTACTTGCTTTTGAAGCTGGAAGGAAAGGGAAAATCAGAGTTAACACCATATCTGCAGgtattttcttc-tgtaggaatattctcttggaataaa-gctagcattgtaaatcttggaactaggtgattgcctatgcgataccatttggaaattaatgaca-------

upper sequence: GRMZM2G070422_T01 (Zea mays), 5'ss of exon 11
lower sequence: Vv08s0007g06390.t01 (Vitis vinifera), 5'ss of exon 11
GTGCTTGCATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttatcacgtaatactgttgaagtaaaaggaatattagcagtatattttttttggtgagctattcctctatgccttgacaattaacctacacctgtacctatag
|| || || || ||||||||| |||||  |||||||||||| || |||||||| ||||||||| |    |  | ||  | |    ||           | | | |   |  | |   |   |   | |   |||  || ||   ||| |||| |     || |||  
GTACTGGCTTTTGAAGCTGGGAGAAAACACAAAATCAGAGTCAATACCATATCTGCAGgtactctcccaatatcatggtttcatggttgtgac----ctggtactgggtggtctggagcatgtgctcctagtataact-gatg-ttatcctatattcaaac-tat--
















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|67015153|gb|CO443902.1|CO443902
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|32864419|gb|CF004101.1|CF004101
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|31364152|gb|CD448507.1|CD448507
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|67015181|gb|CO443930.1|CO443930
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|60345014|gb|DN211987.1|DN211987
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|31357208|gb|CD441565.1|CD441565
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|24768563|gb|CA403692.1|CA403692
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|211078513|gb|FL462572.1|FL462572
EST:     GCAAAATCAGAGTTAACACCWTATTCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATG
genomic: GCAAAATCAGAGTTAACACCATA-TCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATG
EST: gi|32907864|gb|CF012677.1|CF012677
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACCCCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|31362224|gb|CD446581.1|CD446581
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|67042246|gb|CO468501.1|CO468501
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|9952049|gb|BE638632.1|BE638632
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|116819942|gb|EC863109.1|EC863109
EST:     A-TCGAAGCTGGGCGAAAAGGCAAAATCAGAGTT-ACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|9254230|gb|BE344698.1|BE344698
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|31355683|gb|CD440040.1|CD440040
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|9254476|gb|BE344944.1|BE344944
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|31364652|gb|CD449007.1|CD449007
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTGAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|32908049|gb|CF012862.1|CF012862
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACCCCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|211497962|gb|FL450082.1|FL450082
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|211375763|gb|FL457930.1|FL457930
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACTCCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|71766308|gb|DR964245.1|DR964245
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|60399474|gb|DN232286.1|DN232286
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|67022814|gb|CO451563.1|CO451563
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|13150169|gb|BG320491.1|BG320491
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|211497961|gb|FL450081.1|FL450081
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|211373107|gb|FL457929.1|FL457929
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|6466754|gb|AW191414.1|AW191414
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTACCCCCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|6526806|gb|AW216075.1|AW216075
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTACCCCCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|44901425|gb|CK827970.1|CK827970
EST:     ATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|111990916|gb|EE332354.1|EE332354
EST:     ATNCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGA
EST: gi|29544932|gb|CB605540.1|CB605540
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|32908050|gb|CF012863.1|CF012863
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|32907865|gb|CF012678.1|CF012678
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|211297571|gb|FL439288.1|FL439288
EST:     ATTCGAAGCTGGGCGWAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|116826086|gb|EC869836.1|EC869836
EST:     CATATCAGCAG                         GCCCTC-TGGGAGCCGAGCTGCT-AGGCAATTGGATTTATTGAGAAGATGA
genomic: CATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
EST: gi|6564253|gb|AW231875.1|AW231875
EST:     ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAG                         GCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA
genomic: ATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttat ... gtacctatagGCCCTCTTGGGAGCCGAGCTGCTAAGGCAATTGGATTTATTGAGAAGATGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGCTTGCATTCGAAGCTGGGCGAAAAGGCAAAATCAGAGTTAACACCATATCAGCAGgtacttttatcacgtaatactgttgaagtaaaaggaatattagcagtatattttttttggtgagctattcctctatgccttgacaattaacctacacctgtacctatag

- - - - - -  AAGCTG