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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCGAGCCCTACTCCGTGGAGGTCACCCAGGGTGGCGAGCTACTCGTAATGGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGATgtgagtgcgctctggctgacctcctcctcctcctagccccccttgaatccggcatgttttgctgttagtcccgagggccccccggcgccccgctaattat...

Basic information

species Zea mays
transcript GRMZM2G075260_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G075260_T01 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os02g49770.1 (Oryza sativa), 5'ss of exon 3
ATCGAGCCCTACTCCGTGGAGGTCACCCAGGGTGGCGAGCTACTCGTAATGGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGATgtgagtgcgctctggctgacctcctcctcctcctagccccccttgaatccggcatgttttgctgttagtcccgag-ggccccccggcgccccgctaattat------------
|||||||||||| | ||||||||||||||||| |||||||| ||||| |||||||||||||||||||||||||||||||| || ||||||||||| ||||||||||| || |   ||  | ||     | |||||          ||| ||||  ||     || |||| || || ||    |  |||  | || |||||             
ATCGAGCCCTACGCGGTGGAGGTCACCCAGGGCGGCGAGCTGCTCGTCATGGACTCCATGAACAGCAACATCTACAGGATCGCCCTGCCGCTGTCTCGATgtgagtgagccc---ctatcttcgctgccttccta----------aattcggctggtggcaatgctagtgcccagtgggattctcgcgttctgccaattagatgcttgtctag
















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|78081385|gb|DV509797.1|DV509797
EST:     GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGAT                         ATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG
genomic: GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGATgtgagtgcgc ... aacaatgcagATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG
EST: gi|71436276|gb|DR817326.1|DR817326
EST:     GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGAT                         ATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG
genomic: GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGATgtgagtgcgc ... aacaatgcagATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG
EST: gi|211042152|gb|FL156954.1|FL156954
EST:     GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGAT                         ATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG
genomic: GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGATgtgagtgcgc ... aacaatgcagATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG
EST: gi|211042150|gb|FL156952.1|FL156952
EST:     GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGAT                         ATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG
genomic: GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGATgtgagtgcgc ... aacaatgcagATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG
EST: gi|50334127|gb|CO529253.1|CO529253
EST:     GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGAT                         ATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG
genomic: GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGATgtgagtgcgc ... aacaatgcagATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG
EST: gi|71327834|gb|DR800547.1|DR800547
EST:     GACTCCATGAACAGCAACCATCTACAGGATGGCGCTGCCGCTGTCCCGAT                         ATAAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCAT
genomic: GACTCCATGAACAGCAAC-ATCTACAGGATGGCGCTGCCGCTGTCCCGATgtgagtgcgc ... aacaatgcagATA-GCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCAT
EST: gi|31357778|gb|CD442135.1|CD442135
EST:     GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGAT                         ATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG
genomic: GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGATgtgagtgcgc ... aacaatgcagATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG
EST: gi|211499168|gb|FL156948.1|FL156948
EST:     GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGAT                         ATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAANGATTTCCTGGTCATG
genomic: GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGATgtgagtgcgc ... aacaatgcagATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG
EST: gi|148939778|gb|EC884477.2|EC884477
EST:     GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGAT                         ATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG
genomic: GGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGATgtgagtgcgc ... aacaatgcagATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCGAGCCCTACTCCGTGGAGGTCACCCAGGGTGGCGAGCTACTCGTAATGGACTCCATGAACAGCAACATCTACAGGATGGCGCTGCCGCTGTCCCGATgtgagtgcgctctggctgacctcctcctcctcctagccccccttgaatccggcatgttttgctgttagtcccgagggccccccggcgccccgctaattat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctcctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcccccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccccct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gccccgc