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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttactgattttccaggttttgtatttgcatagctgcattgtcaaatgtacatatgaattcttctgattttctttatttggtttgtgtgaattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA

Basic information

species Zea mays
transcript GRMZM2G074898_T03
intron # 1
splice site 3'
intron type U2

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:     CTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCTCGCTCCGCTCGAAAG                         TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA
genomic: CTACGGCCGCCACCATCGCCTCGCGGCCGCCTGC-CGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211518470|gb|FL391754.1|FL391754
EST:     TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAG                         TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211275568|gb|FL307670.1|FL307670
EST:     GCCTGCCGCTCCGCTCGGAAG                         TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTTAA
genomic: GCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211379540|gb|FL395178.1|FL395178
EST:     TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAG                         TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|33466891|gb|CF243940.1|CF243940
EST:     TGCCGCTCCGCTCGAAAG                         TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
genomic: TGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|61117725|gb|DN558686.1|DN558686
EST:     CATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGGAAG                         TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA
genomic: CATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211205227|gb|FL427932.1|FL427932
EST:     TCTACCGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGGAAG                         TTTTTGGTGAAGATTTTTTGAAGCKGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|30088005|gb|CB886210.1|CB886210
EST:     CCACCATCGCCTCGCGG-CGCCTGCCGCTCCGCTCGAAAG                         -TTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGG-GCTGAA
genomic: CCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211349078|gb|FL422792.1|FL422792
EST:     TCTACGGCCGCCACCATCGCCTCGCGACCGCCTGCCGCTCCGCTCGAAAG                         TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211539244|gb|FL396305.1|FL396305
EST:     TCTACGGCCGCCACCATCGCCTCGCGACCGCCTGCCGCTCCGCTCGAAAG                         TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|9255288|gb|BE345756.1|BE345756
EST:     CACCATCGCCTCGCGACCGCCTGCCGCTCCGCTCGAAAG                         -TTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
genomic: CACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211533526|gb|FL409955.1|FL409955
EST:     TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAG                         TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211501617|gb|FL378298.1|FL378298
EST:     TCTACCGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGGAAG                         TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|61117724|gb|DN558685.1|DN558685
EST:     GCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGGAAG                         TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA
genomic: GCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211481788|gb|FL382325.1|FL382325
EST:     TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAG                         TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211423511|gb|FL387507.1|FL387507
EST:     TCTACGGCCGCCACCATCGCCTCGCGACCGCYTGCCGCTCCGCTCGAAAG                         TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211202123|gb|FL177996.1|FL177996
EST:     TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAG                         TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211202120|gb|FL177993.1|FL177993
EST:     TCTACGGCCGCCACCATCGCCTCGNGACCGCCTGCCGCTCCGCTCGAAAG                         TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211520879|gb|FL379231.1|FL379231
EST:     TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAG                         TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211415704|gb|FL382754.1|FL382754
EST:     TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAG                         TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211429599|gb|FL427249.1|FL427249
EST:     TCTACGGCCGCCACCATCGCCTCGCGACCGCCTGCCGCTCCGCTCGAAAG                         TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|61117723|gb|DN558684.1|DN558684
EST:     TCTACCGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGGAAG                         TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|120480973|gb|EH211102.1|EH211102
EST:     TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAG                         TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211343699|gb|FL394269.1|FL394269
EST:     TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAG                         TTTTTGGTGAAGATTTTTTGAAGCTGAGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|86470312|gb|DY236682.1|DY236682
EST:     CTGCCGCTCCGCTCGAAAG                         TTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
genomic: CTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
EST: gi|211408570|gb|FL414978.1|FL414978
EST:     TCTACGGCCGCCACCATCGCCTCGCGACCGCTTGCCGCTCCGCTCGAAAG                         TTTTTAGTGAAGATTTTTTGAAGCCGRGAAGATGGTGCTGAA
genomic: TCTACGGCCGCCACCATCGCCTCGCGGCCGCCTGCCGCTCCGCTCGAAAGgtgtggcaac ... aattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgtacatatgaattcttctgattttctttatttggtttgtgtgaattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA
                 ttctgat  putative branch site (score: 3)
                    tgattttctttattt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgttactgattttccaggttttgtatttgcatagctgcattgtcaaatgtacatatgaattcttctgattttctttatttggtttgtgtgaattacacagTTTTTAGTGAAGATTTTTTGAAGCCGAGAAGATGGTGCTGAA

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