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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAAGATGCCGCCTCCAACATGGGGCTCCCGCTCGCCGGTGCCGCCTACCAGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgccaacatttgctgcgcgaccctttattggcggcgatggtaattccgaatttgttggcttgctgaacgattgtag

Basic information

species Zea mays
transcript GRMZM2G006781_T03
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G006781_T03 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os12g35290.1 (Oryza sativa), 5'ss of exon 1
--CCAAGATGCCGCCTCCAACATGGGGCTCCCGCTCGCCGGTGCCGCCTACCAGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgt---tcatacgccaacatttgctgc----gcgaccctttattggcggcgatggtaattccgaatttgttggct-tgctgaacgat-tgtag
  || | ||| |  |  |  |   |  |||||||||||||| |||||||||||||||||||| || ||||| || |||||||||||||||||||||||||||||   ||   | ||  |    |||||    ||  |   ||  |     ||||||  ||   ||  |  | || | || ||   | |  | ||
CGCCGACATGTC--CGGCGCCTCCGTCCTCCCGCTCGCCGGCGCCGCCTACCAGCCCTACGTCTCCGAGCTCCTCTCCTTCTCCATCGAGCGCCTCCACAAGgtagttcccgcccccgcccccgctgctgctgctgctgcttcctcttctcgatggcgatggtgatctgatgggttgtggtggtgggtgcgcag
















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|149008084|gb|EE040323.2|EE040323
EST:     AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAG                         GAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
genomic: AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgc ... acgattgtagGAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
EST: gi|148939698|gb|EC884368.2|EC884368
EST:     AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAG                         GAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
genomic: AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgc ... acgattgtagGAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
EST: gi|148963434|gb|EE014450.2|EE014450
EST:     AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAG                         GAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
genomic: AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgc ... acgattgtagGAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
EST: gi|211334830|gb|FL416303.1|FL416303
EST:     AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAG                         GAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
genomic: AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgc ... acgattgtagGAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
EST: gi|148986186|gb|EE029955.2|EE029955
EST:     AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAG                         GAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
genomic: AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgc ... acgattgtagGAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
EST: gi|71316958|gb|DR795163.1|DR795163
EST:     AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAG                         GAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
genomic: AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgc ... acgattgtagGAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
EST: gi|211423964|gb|FL408859.1|FL408859
EST:     AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAG                         GAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGTCAGATGCAG
genomic: AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgc ... acgattgtagGAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
EST: gi|71305530|gb|DR788908.1|DR788908
EST:     AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAG                         GAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
genomic: AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgc ... acgattgtagGAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
EST: gi|86469576|gb|DY235946.1|DY235946
EST:     ACCCCTACTTTTCTGAGCTTCTTTCTTTCTCCATCGAGCGCCTCCACAAG                         GAGCCGGAGTTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
genomic: AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgc ... acgattgtagGAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
EST: gi|211082178|gb|FL396889.1|FL396889
EST:     AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAG                         GAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
genomic: AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgc ... acgattgtagGAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
EST: gi|71449856|gb|DR830906.1|DR830906
EST:     AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAG                         GAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
genomic: AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgc ... acgattgtagGAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
EST: gi|148999331|gb|EE036267.2|EE036267
EST:     AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAG                         GAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
genomic: AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgc ... acgattgtagGAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
EST: gi|148979834|gb|EE026851.2|EE026851
EST:     AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAG                         GAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG
genomic: AGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgc ... acgattgtagGAGCCGGAGCTTTTGAGGGTCGACGCGGAGCGGGTGCGGCGGCAGATGCAG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCAAGATGCCGCCTCCAACATGGGGCTCCCGCTCGCCGGTGCCGCCTACCAGCCCTACGTTTCTGAGCTTCTTTCCTTCTCCATCGAGCGCCTCCACAAGgttcatacgccaacatttgctgcgcgaccctttattggcggcgatggtaattccgaatttgttggcttgctgaacgattgtag

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