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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaagcttgattcgtttccgccattctatctttaccctcgtcctttaccgttcgattgttcgacaaaaaggttccaaccctttaccatctctcgccttcattttttcgccctatgaactacgttacataatgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGCCACCCCCGCGCTCGCCGAGAAGTACAACTCGGTGCGCGGCGAATGAGAC

Basic information

species Zea mays
transcript GRMZM2G168629_T01
intron # 28
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G168629_T01 (Zea mays), 3'ss of exon 28
lower sequence: LOC_Os02g07120.1 (Oryza sativa), 3'ss of exon 28
gtaaaaagcttgattcgtttccgccattctatctttaccctcgtcctttaccgttcgattgttcgacaaaaaggttccaaccctttaccatctctcgccttcattttttcgccctatgaactacgttacataatgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGCCACCCCCGCGCTCGCCGAGAAGTACAACTCGGTGCGCGGCGAATGAGAC
                  | | ||||||||||   | || |  |  ||    ||||||  ||  ||||      ||| ||   || |  ||||  |     | | ||||   | | ||   |||||            ||||| || |  || ||||||||  ||||||||||||||||||||||||||| |||| | ||  |||| || || |||||||||||||||||| |||| | ||| 
------------------tacagccattctatacatgccat-atgttt----gttcgaaagt--gacatctgcattctaat--ttgagtatcttac-----cttgttttgatcttttgggttacgtc-----------tgcagTGGTAATGATTACAGCATGAGGTTCAAGAATCTGATGAACAAGATAATGGCCTCACCTCCGCTTGCTGACAAGTACAACTCGGTGCGCAGCGAGTAAGAG
















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|71430729|gb|DR811779.1|DR811779
EST:     GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTTTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|32924248|gb|CF029060.1|CF029060
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|71430730|gb|DR811780.1|DR811780
EST:     GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|5058666|gb|AI737142.1|AI737142
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|32907845|gb|CF012658.1|CF012658
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|78105807|gb|DV524225.1|DV524225
EST:     GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|18170739|gb|BM340579.1|BM340579
EST:     GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|4967010|gb|AI691788.1|AI691788
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|19770378|gb|BQ035099.1|BQ035099
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|211106237|gb|FL467711.1|FL467711
EST:     GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|9952231|gb|BE638814.1|BE638814
EST:     GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|78119496|gb|DV537880.1|DV537880
EST:     GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTTTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|29544507|gb|CB604887.1|CB604887
EST:     GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|37380534|gb|CF627085.1|CF627085
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|32924416|gb|CF029228.1|CF029228
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|120479953|gb|EH210674.1|EH210674
EST:     GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|24769168|gb|CA404297.1|CA404297
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|8666088|gb|BE186904.1|BE186904
EST:     GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|32923836|gb|CF028648.1|CF028648
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|4804473|gb|AI665343.2|AI665343
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|213175422|gb|FM193890.1|FM193890
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|78105806|gb|DV524224.1|DV524224
EST:     GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTTTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|29543484|gb|CB605570.1|CB605570
EST:     GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|18168777|gb|BM338617.1|BM338617
EST:     GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|211405020|gb|FL469632.1|FL469632
EST:     GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|40335220|gb|CK369290.1|CK369290
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|113701110|gb|EE678614.1|EE678614
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|78543741|gb|DV621239.1|DV621239
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|32923972|gb|CF028784.1|CF028784
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|113703700|gb|EE681204.1|EE681204
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|33095774|gb|CF055768.1|CF055768
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC
EST: gi|32923875|gb|CF028687.1|CF028687
EST:     GACATGATCCGCAGCGCTCTCAGGGCTATATCTTCTCTAAGCCGCATAAG                         CGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGAC
genomic: GACATGATCCGCAGCGCTCTCAGGGCAATATCTTCTCTAAGCCGCATAAGgtaaaaagct ... tgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catctctcgccttcattttttcgccctatgaactacgttacataatgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGCCACCCCCGCGCTCGCCGAGAAGTACAACTCGGTGCGCGGCGAATGAGAC
                                     ttacataatgtaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaaagcttgattcgtttccgccattctatctttaccctcgtcctttaccgttcgattgttcgacaaaaaggttccaaccctttaccatctctcgccttcattttttcgccctatgaactacgttacataatgtaatgcagCGGCAGCGACTACAGCATACGGTTCAAGAATCTGATGAACAAGATAACGGCCACCCCCGCGCTCGCCGAGAAGTACAACTCGGTGCGCGGCGAATGAGAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT