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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTCTTTGAAGCCTGAACTTTTTGAAGGATTGAGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccatacataaatgttagcaaatatcttgtgttatatttgtccagccctaacaacatcttccacag

Basic information

species Zea mays
transcript GRMZM2G174696_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G174696_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g20750.1 (Oryza sativa), 5'ss of exon 2
TGTCTTTGAAGCCTGAACTTTTTGAAGGATTGAGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccatacataaatgttagcaaatatcttgtgttatatttgtccagccctaacaacatcttccacag
|||| ||||| ||||||||||||||||||||||||||||||||||| |||||||| ||||||||||| || || |||||||||| ||   |      ||||||   |  | | |    || | || | | |    |    ||| | || ||||
TGTCGTTGAAACCTGAACTTTTTGAAGGATTGAGGTTTGACTTCACTAAAGGATTAAATCAGAAGTTCTCACTCAGCCACAGgtaagggaaacagataatgttgatatgtgtttcactttcttttgggcaatttattctgacaacatcaacag
















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|211089741|gb|FL262759.1|FL262759
EST:     AGATTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|31353843|gb|CD438200.1|CD438200
EST:     AGATTTGTCTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|51593036|gb|CV072182.1|CV072182
EST:     AGATTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|148944949|gb|EC890114.2|EC890114
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|211087304|gb|FL262757.1|FL262757
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAKAAGTTTTCTCT-AGC-ACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGA
EST: gi|71428447|gb|DR809497.1|DR809497
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|76294141|gb|DV033709.1|DV033709
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|211089744|gb|FL262762.1|FL262762
EST:     AGATTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|148937183|gb|EC881364.2|EC881364
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|5268993|gb|AI770957.1|AI770957
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|211402157|gb|FL346436.1|FL346436
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAG
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAG
EST: gi|149090165|gb|EE179465.2|EE179465
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
EST: gi|89762284|gb|DY689955.1|DY689955
EST:     AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAG                         CATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA
genomic: AGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccat ... tcttccacagCATTTTTATGGGCTCCTTAGAAGTTCCAGCCCAGGCATCTGAAACTATTAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTCTTTGAAGCCTGAACTTTTTGAAGGATTGAGGTTTGACTTCACAAAAGGATTGAATCAGAAGTTTTCTCTTAGCCACAGgtgagaccatacataaatgttagcaaatatcttgtgttatatttgtccagccctaacaacatcttccacag

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