Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgttactgtattacatagttgtatcaacgtgagtccataggctcattagttttatttgaattttgttttccatcagtcgcacactcattttcagtatggatggcattgtttttaagtagcctttcactttaggagtcttgtgaaattttgaagtacataatgtttattggcattacaaacttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC

Basic information

species Zea mays
transcript GRMZM2G130398_T03
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G130398_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g59600.1 (Oryza sativa), 3'ss of exon 7
gtaagttgttactgtattacatagttgtatcaacgtgagtccataggctcattagttttatttgaattttgttttccatcagtcgcacactcattttcagtatggatggcattgtttttaagtagcctttcactttaggagtcttgtgaaattttgaagtacataatgtttattggcattacaaacttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
                                                                                       ||   |    || |    |    ||| ||| ||  |||   ||   ||   |   ||| ||  || |    |  |||| | || | ||   | |  | | ||| ||||||||||| ||||||||  |||| || ||||||||||||||||| ||
-------------------------------------------------------------------------------------tgcatataggagcattccacaccatatt-tttatacatagatattt--ttatagttccttctgggatct----gagcatattattcactgagctga--atcctgaacagAAATACTTTGGTGCTGCTCTGGGTAAAGGAAGACAGGCTGCAAAAAC
















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|71449736|gb|DR830786.1|DR830786
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|78089684|gb|DV518058.1|DV518058
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|149044661|gb|EE047635.2|EE047635
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|71767052|gb|DR964989.1|DR964989
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|76913938|gb|DV165334.1|DV165334
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|149081024|gb|EE170124.2|EE170124
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|76289822|gb|DV029390.1|DV029390
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|32832322|gb|CD972000.1|CD972000
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCACGAGTTCCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|78106940|gb|DV525358.1|DV525358
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|31364473|gb|CD448828.1|CD448828
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGGAGACAGGC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGC
EST: gi|31353269|gb|CD437626.1|CD437626
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGGAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|33771241|gb|CF273420.1|CF273420
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGGACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGA
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGA
EST: gi|149009039|gb|EE041221.2|EE041221
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|148945160|gb|EC890360.2|EC890360
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGA
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGA
EST: gi|148983025|gb|EE028929.2|EE028929
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|148933477|gb|EC877180.2|EC877180
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|76280505|gb|DV020073.1|DV020073
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|149106947|gb|EE188848.2|EE188848
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|148949401|gb|EC894858.2|EC894858
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|60351410|gb|DN218383.1|DN218383
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|32834256|gb|CD973934.1|CD973934
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|78081016|gb|DV509428.1|DV509428
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|148949400|gb|EC894857.2|EC894857
EST:     ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
EST: gi|211354331|gb|FL214831.1|FL214831
EST:     ATAGGGATGGGGCACAGCTCTACATGATAGAACCCTCANGAGTTTCCTAC                         AAATACTTCGGTGCTGCATTTGGGAAAGGAAGACAGGNCTGCAA-GAC
genomic: ATAGGGATGGGCCACAGCTCTACATGATAGAACCCTCAGGAGTTTCCTACgtaagttgtt ... acttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGG-CTGCAAAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtcttgtgaaattttgaagtacataatgtttattggcattacaaacttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC
                    tacataatgtttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttgttactgtattacatagttgtatcaacgtgagtccataggctcattagttttatttgaattttgttttccatcagtcgcacactcattttcagtatggatggcattgtttttaagtagcctttcactttaggagtcttgtgaaattttgaagtacataatgtttattggcattacaaacttgaccagAAATACTTCGGTGCTGCATTGGGGAAGGGAAGACAGGCTGCAAAGAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG