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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgccgctagctgctcattatgtttgtggcttggttatatttgttgctacacatttggtgctggtgcgctgactgactggtagggtctcactccatgctattgtgcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGA

Basic information

species Zea mays
transcript GRMZM2G010596_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G010596_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g12560.1 (Oryza sativa), 3'ss of exon 2
gtttgccgctagctgctcattatgtttgtggcttggttatatttgttgctacacatttggtgctggtgcgctgactgactg---gtagggtctcactccatgctattgtgcttgt----gtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGA
                      |||   |  |||| || | || ||| ||   |  || |  ||| | |     ||  ||    |||  |  |  | ||||||| || |||||||    ||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||| ||||| |||||||| |||||||||||||||||| 
---------------------gtgtggttctcttgattttgttggttacttggctcttagc-ctgattcatgttctttcttcatgtatagatttgccccatgctgttctgcttgtttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGCTGCTTCTCGGTTGTGTTGGAGTGTGTGCCAGCTCCTGTGGCAGCTGCTGCAACATCAGCATTGC

upper sequence: GRMZM2G010596_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA18G47310.1 (Glycine max), 3'ss of exon 4
gtttgccgctagctgctcattatgtttgtggcttggt-tatatttgttgctacacatttggtgctggtgcgctgactgactggtagggtctcactccatgctattgtgcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGA
               | ||  || ||   | |  |   |||||||     |  | ||   ||      ||  |  | |  |  ||  |||   ||  ||   | |  |  | || ||||||||||||  ||| | || |||||||| ||||| ||||| || |||||  | |||||||||||||| || ||||| || ||||| ||| ||||| |  
---------------cccaa-attttaaggacaagaaatatatttaagcgttaatatccagtaaattggcatttgcaggattttattgtcatccta-ataagaataagtctatgaagGTTGTGGAGATGGCATTGGCTTTGCAGGAAGCTGGGTGCTTTTCTGTTGTTGTAGAGTGTGTGCCTGCACCTGTGGCTGCTGCTGCTACAGCAGCACTTC
















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|76925029|gb|DV170255.1|DV170255
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|50331355|gb|CO526481.1|CO526481
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|71311050|gb|DR791837.1|DR791837
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|26559302|gb|CA831537.1|CA831537
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|148971954|gb|EE022743.2|EE022743
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCCTTGCAGGAGGCTGGATGCTTCTCGGTTGT
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCC-TTGCAGGAGGCTGGATGCTTCTCGGTTGT
EST: gi|148986222|gb|EE029970.2|EE029970
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|22542195|gb|BU092633.1|BU092633
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|78114103|gb|DV532492.1|DV532492
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|26559395|gb|CA831630.1|CA831630
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCA
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCA
EST: gi|74234160|gb|DT642074.1|DT642074
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|78092454|gb|DV520828.1|DV520828
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|71432258|gb|DR813308.1|DR813308
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|148963379|gb|EE014384.2|EE014384
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|50326185|gb|CO521311.1|CO521311
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|148981405|gb|EE027629.2|EE027629
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|74245889|gb|DT653803.1|DT653803
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|76010637|gb|DT937807.1|DT937807
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|149096806|gb|EE182592.2|EE182592
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|71766837|gb|DR964774.1|DR964774
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|76291247|gb|DV030815.1|DV030815
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGGTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|71431855|gb|DR812905.1|DR812905
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|22546513|gb|BU098824.1|BU098824
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|71447311|gb|DR828361.1|DR828361
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGG
EST: gi|76929700|gb|DV172121.1|DV172121
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCANGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|91051986|gb|EB162404.1|EB162404
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|91049383|gb|EB159801.1|EB159801
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
EST: gi|149112326|gb|EE295217.2|EE295217
EST:     TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAG                         GTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG
genomic: TTCTCGGTGGATTTAGGCCTCAAGGGAAGACGGTTGACAGTGCTATAAAGgtttgccgct ... gcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgccgctagctgctcattatgtttgtggcttggttatatttgttgctacacatttggtgctggtgcgctgactgactggtagggtctcactccatgctattgtgcttgtgtagGTTGTGGAGACAGCACTTGCCTTGCAGGAGGCTGGATGCTTCTCGGTTGTGTTGGAGTGTGTGCCTGCTCCAGTGGCAGCAGCTGCAACATCAGCATTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC