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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actaaacaagtactcttggtctacttacgtgtagtttttttttctagtctacccaagcttgtttgagactaaagggttgtgctgtcgattcgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATGGAGAACAAGGAGCTTGAGCGAAAG

Basic information

species Zea mays
transcript GRMZM2G524711_T02
intron # 5
splice site 3'
intron type U2

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|5847165|gb|AW000244.1|AW000244
EST:     TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAA                         GTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
genomic: TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAAgtaagatact ... cgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
EST: gi|211472157|gb|FK973006.1|FK973006
EST:     TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAA                         GTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
genomic: TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAAgtaagatact ... cgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
EST: gi|211107954|gb|FL121656.1|FL121656
EST:     TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAA                         GTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
genomic: TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAAgtaagatact ... cgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
EST: gi|60357105|gb|DN224078.1|DN224078
EST:     TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAA                         GTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
genomic: TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAAgtaagatact ... cgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
EST: gi|148932235|gb|EC875748.2|EC875748
EST:     TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAA                         GTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
genomic: TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAAgtaagatact ... cgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
EST: gi|6031472|gb|AW076374.1|AW076374
EST:     TATCTATTGAATTGAAAGACCAACATATAAAGGATATACCTCTTGATTTT                         TTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
genomic: TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAAgtaagatact ... cgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
EST: gi|50333517|gb|CO528643.1|CO528643
EST:     TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAA                         GTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
genomic: TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAAgtaagatact ... cgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
EST: gi|211073294|gb|FL472749.1|FL472749
EST:     TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAA                         GTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
genomic: TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAAgtaagatact ... cgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
EST: gi|78022397|gb|DV490784.1|DV490784
EST:     ACATATAAAGGGATATACCTCTTGATAAA                         GTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
genomic: ACATATAAA-GGATATACCTCTTGATAAAgtaagatact ... cgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
EST: gi|31362466|gb|CD446823.1|CD446823
EST:     TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAA                         GTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
genomic: TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAAgtaagatact ... cgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
EST: gi|60356608|gb|DN223581.1|DN223581
EST:     AACATATAAAGGATATACCTCTTGATAAA                         GTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
genomic: AACATATAAAGGATATACCTCTTGATAAAgtaagatact ... cgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
EST: gi|32832624|gb|CD972302.1|CD972302
EST:     TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAA                         GTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
genomic: TATCTATTGAATTGAAAGTCCAACATATAAAGGATATACCTCTTGATAAAgtaagatact ... cgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
EST: gi|149090385|gb|EE179694.2|EE179694
EST:     CCAACATATAAAGGATATACCTCTTGATAAA                         GTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG
genomic: CCAACATATAAAGGATATACCTCTTGATAAAgtaagatact ... cgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtctacccaagcttgtttgagactaaagggttgtgctgtcgattcgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATGGAGAACAAGGAGCTTGAGCGAAAG
                     gactaaa  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
actaaacaagtactcttggtctacttacgtgtagtttttttttctagtctacccaagcttgtttgagactaaagggttgtgctgtcgattcgaatctcagGTATTGGCAAAGCAACAGATGGATCTTCTCACAGCAAAAGCATGGCTTATGGAGAACAAGGAGCTTGAGCGAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- -aaacaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgtc