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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATACATAACCTATGCTAAGCTGAATGTGTTTCCCAAAATACATGATGCCGATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCTgtatgatatccttccctttttagccttgtatagggctttgtgcaaactgaacttctgaagtgacacctttgaaaacaatgaagtactaaatagtttccaactacatttgcag

Basic information

species Zea mays
transcript GRMZM2G139894_T02
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139894_T02 (Zea mays), 5'ss of exon 15
lower sequence: LOC_Os11g29380.1 (Oryza sativa), 5'ss of exon 15
ATACATAACCTATGCTAAGCTGAATGTGTTTCCCAAAATACATGATGCCGATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCTgtatgatatcctt--ccctttttagccttgtatagggctttgtgcaaactgaa-----cttctga-------agtgacacctttgaaaacaatgaagtactaaatagtttccaactacatttgcag------
 |||||||| ||||| ||| |||| |||||||||||||| |||||||| || || |||||||||||||||||||| || ||||| || ||||| || |||||| |||||||||    ||| |     |   ||    |||     | ||| ||      | | ||       | ||| |||| |||||||  || |   | | ||  | ||||||    |||   |      
GTACATAACTTATGCCAAGTTGAACGTGTTTCCCAAAATTCATGATGCTGACCTGGACAAGATTAGCCATGTTTACGCAGAACTTCGTCGTGAGTCATCTgtaagatatccttgtttcttgtccatatcaaatgcatcttatcaaatacttaaatatcttgccgaattggatattgatacctatgaaaac--tggaaaccaacatgatatccaacctattttcttgtttcag
















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|33093214|gb|CF053208.1|CF053208
EST:     ATCTAGATAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCT                         CATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAATCAATCATCCGG
genomic: ATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCTgtatgatatc ... acatttgcagCATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAGTCAATCATCCGG
EST: gi|18450516|gb|BM428794.1|BM428794
EST:     ATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGNGAATCCTCT                         CATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAATCAATCATCCGG
genomic: ATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCTgtatgatatc ... acatttgcagCATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAGTCAATCATCCGG
EST: gi|18659890|gb|BM500576.1|BM500576
EST:     ATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCT                         CATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAATCAATCATCCGG
genomic: ATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCTgtatgatatc ... acatttgcagCATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAGTCAATCATCCGG
EST: gi|32943927|gb|CF048746.1|CF048746
EST:     ATCTAGATAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCT                         CATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAATCAATCATCCGG
genomic: ATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCTgtatgatatc ... acatttgcagCATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAGTCAATCATCCGG
EST: gi|32931979|gb|CF036791.1|CF036791
EST:     ATCTAGATAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCT                         CATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAATCAATCATCCGG
genomic: ATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCTgtatgatatc ... acatttgcagCATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAGTCAATCATCCGG
EST: gi|32934497|gb|CF039309.1|CF039309
EST:     ATCTAGATAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCT                         CATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAATCAATCATCCGG
genomic: ATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCTgtatgatatc ... acatttgcagCATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAGTCAATCATCCGG
EST: gi|18450515|gb|BM428793.1|BM428793
EST:     ATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCT                         CATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAATCAATCATCCGG
genomic: ATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCTgtatgatatc ... acatttgcagCATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAGTCAATCATCCGG
EST: gi|32932452|gb|CF037264.1|CF037264
EST:     ATCTAGATAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCT                         CATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAATCAATCATCCGG
genomic: ATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCTgtatgatatc ... acatttgcagCATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAGTCAATCATCCGG
EST: gi|32932490|gb|CF037302.1|CF037302
EST:     ATCTAGATAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCT                         CATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAATCAATCATCCGG
genomic: ATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCTgtatgatatc ... acatttgcagCATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAGTCAATCATCCGG
EST: gi|211174120|gb|FL130957.1|FL130957
EST:     ATCTAGATAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCT                         CATGGCCAAGGGGTTCCTATTTGCAGTAAGGCATATAGAATCAAATCATCC
genomic: ATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCTgtatgatatc ... acatttgcagCATGGCCAAGGGGTTCCTATT-GCAGTAAGGCATATAGAGTCAA-TCATCC
EST: gi|32911609|gb|CF016421.1|CF016421
EST:     ATCTAGATAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCT                         CATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAATCAATCATCCGG
genomic: ATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCTgtatgatatc ... acatttgcagCATGGCCAAGGGGTTCCTATTGCAGTAAGGCATATAGAGTCAATCATCCGG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATACATAACCTATGCTAAGCTGAATGTGTTTCCCAAAATACATGATGCCGATCTAGACAAGATTAGCCATGTTTATGCTGAACTCCGCCGTGAATCCTCTgtatgatatccttccctttttagccttgtatagggctttgtgcaaactgaacttctgaagtgacacctttgaaaacaatgaagtactaaatagtttccaactacatttgcag

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