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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttctatttcttttctttcatttaaatatgttaaaatatctggctagaccatgcctttttttctcggcatgactagcatattttctgtgattggttaatgttattagaaacagttacacatcttgaaattattctaagtacgatcatctccttgcag

Basic information

species Zea mays
transcript GRMZM2G074898_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G074898_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os05g40820.1 (Oryza sativa), 5'ss of exon 2
TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttctatttcttttctttcatttaaatatgttaaaatatctggctagaccatgcctttttttctcggcatga-ctagcatattttctgtgattggttaatgttattagaaacagttacacatcttgaaattattctaagtacgatcatctccttgcag------------------------------------
  ||  |||| |||||    |||| |||||||||||||||||||||||| || | | | || | |  ||| |||||| |   | ||     |||  |   |||||| | ||  |||||  ||||  ||| |  | |  |||||||||| || || ||   ||||       |||  |     | ||||| ||    |  ||| |                                     
AATTCTGTGAGGATTT----AAGCTGAGAAGATGGTGCTGAAgtaagttcctgtgtatattttgttgtttcaatatgattgtagattgttttagtgc---ccttttatcctgtgcatgctctaggctatgtagtttt-ttggttaatggtagtaaaag--gttaatagcaatgatttaccaatgagtactatttcatatttggaaggtatttcaactattacttttatttttatcctacag

upper sequence: GRMZM2G074898_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os05g40820.3 (Oryza sativa), 5'ss of exon 2
TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttctatttcttttctttcatttaaatatgttaaaatatctggctagaccatgcctttttttctcggcatga-ctagcatattttctgtgattggttaatgttattagaaacagttacacatcttgaaattattctaagtacgatcatctccttgcag-----------------------------------------
  ||  |||| |||||    |||| |||||||||||||||||||||||| || | | | || | |  ||| |||||| |   | ||     |||  |   |||||| | ||  |||||  ||||  ||| |  | |  |||||||||| || || ||   ||||       |||  |     | ||||| ||    |  ||| |                                          
AATTCTGTGAGGATTT----AAGCTGAGAAGATGGTGCTGAAgtaagttcctgtgtatattttgttgtttcaatatgattgtagattgttttagtgc---ccttttatcctgtgcatgctctaggctatgtagtttt-ttggttaatggtagtaaaag--gttaatagcaatgatttaccaatgagtactatttcatatttggaaggtatttcaactattacttttatttttatcctacaggacag
















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|211085458|gb|FL413527.1|FL413527
EST:     TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211518470|gb|FL391754.1|FL391754
EST:     TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211275568|gb|FL307670.1|FL307670
EST:     TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTTAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211379540|gb|FL395178.1|FL395178
EST:     TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|33466891|gb|CF243940.1|CF243940
EST:     TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|61117725|gb|DN558686.1|DN558686
EST:     TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211205227|gb|FL427932.1|FL427932
EST:     TTTTTGGTGAAGATTTTTTGAAGCKGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|30088005|gb|CB886210.1|CB886210
EST:     -TTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGG-GCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|14529476|gb|BI096609.1|BI096609
EST:     TTTTTGAAGCTGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211349078|gb|FL422792.1|FL422792
EST:     TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211539244|gb|FL396305.1|FL396305
EST:     TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|9255288|gb|BE345756.1|BE345756
EST:     -TTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTG
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTG
EST: gi|211533526|gb|FL409955.1|FL409955
EST:     TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211501617|gb|FL378298.1|FL378298
EST:     TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|61117724|gb|DN558685.1|DN558685
EST:     TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211481788|gb|FL382325.1|FL382325
EST:     TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211423511|gb|FL387507.1|FL387507
EST:     TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211202123|gb|FL177996.1|FL177996
EST:     TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211202120|gb|FL177993.1|FL177993
EST:     TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCNT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211520879|gb|FL379231.1|FL379231
EST:     TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211415704|gb|FL382754.1|FL382754
EST:     TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211429599|gb|FL427249.1|FL427249
EST:     TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|61117723|gb|DN558684.1|DN558684
EST:     TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|120480973|gb|EH211102.1|EH211102
EST:     TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211343699|gb|FL394269.1|FL394269
EST:     TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|86470312|gb|DY236682.1|DY236682
EST:     TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
EST: gi|211408570|gb|FL414978.1|FL414978
EST:     TTTTTAGTGAAGATTTTTTGAAGCCGRGAAGATGGTGCTGAA                         GACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT
genomic: TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttct ... ctccttgcagGACGGAACTCTGCCGCTTCAGTGGCCAGAAGATCTATCCTGGGAAAGGCAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAAgtaagtttctatttcttttctttcatttaaatatgttaaaatatctggctagaccatgcctttttttctcggcatgactagcatattttctgtgattggttaatgttattagaaacagttacacatcttgaaattattctaagtacgatcatctccttgcag

- - -  TGAAGA
- - - - - - - -  TTGAAG
- - - - - - - - - TGAAGC
- - - - - - - - - - - - - - AAGATG