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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGCGGACGTCGTATCTGGCGCGGATAGGCGCCTCGGCGGTATCGCTCTCGCTGGAGATGGACGCCTTCTCTGGATCGAGGGCCGCCCCGAGGAGAAAGGgtaaatgaaatccgctcccgaggtttagtggccaaggcgttgacattcgacgcgctcgcgataatgtttctgaaagttttagtgttgctgcttgctagtt...

Basic information

species Zea mays
transcript GRMZM2G120302_T02
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G120302_T01 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os06g11180.1 (Oryza sativa), 5'ss of exon 1
CTGCGGACGTCGTATCTGGCGCGGATAGGCGCCTCGGCGGTATCGCTCTCGCTGGAGATGGACGCCTTCTCTGGATCGAGGGCCGCCCCGAGGAGAAAGGgtaaatgaaatccgctcccgaggtttagtggccaa-ggcgttgacattcgacgcgctcgcgataatgtttctgaaagttttagtgttgctgcttgctagtt
| || || || || || ||||| || | ||| || || || ||||| ||||| || || || ||||| ||||||||||||||||| |||||||||||||||||| | ||  | |   |||  |||     ||  |   |  | | |    |     |  |   ||   || ||  | |   | ||        | |||   
CCGCCGATGTTGTCTCCGGCGCCGACAAGCGGCTGGGAGGGATCGCCCTCGCCGGTGACGGGCGCCTCCTCTGGATCGAGGGCCGGCCCGAGGAGAAAGGgtaagttaa-ccagtaaccgccgttcctgagcttataacagttataaataatttttttcctccaaatattttggtaatagcattggcagctactactacac
















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|148964888|gb|EC906051.2|EC906051
EST:     GCTGGAGATGGACGCCTTCTCTGGATCGAGGGCCGCCCCGAGGAGAAAGG                         GCGTATGGTTATTGTAAAGGAGGAGGATAATCCTGTGGATGTCATACCTCA
genomic: GCTGGAGATGGACGCCTTCTCTGGATCGAGGGCCGCCCCGAGGAGAAAGGgtaaatgaaa ... ctgtgtttagGCGTATGGTTATTGTAAAGGAGGAGGATAATCCTGTGGATGTCATACCTCA
EST: gi|211313028|gb|FL032575.1|FL032575
EST:     GCTGGAGATGGACGCCTTCTCTGGATCGAGGGCCGCCCCGAGGAGAAAGG                         GCGTATGGTTATTGTAAAGGAGGAGGATAATCCTGTGGATGTCATACCTCA
genomic: GCTGGAGATGGACGCCTTCTCTGGATCGAGGGCCGCCCCGAGGAGAAAGGgtaaatgaaa ... ctgtgtttagGCGTATGGTTATTGTAAAGGAGGAGGATAATCCTGTGGATGTCATACCTCA
EST: gi|211313027|gb|FL032574.1|FL032574
EST:     GCTGGAGATGGACGCCTTCTCTGGATCGAGGGCCGCCCCGAGGAGAAAGG                         GCGTATGGTTATTGTAAAGGAGGAGGATAATCCTGTGGATGTCATACCTCA
genomic: GCTGGAGATGGACGCCTTCTCTGGATCGAGGGCCGCCCCGAGGAGAAAGGgtaaatgaaa ... ctgtgtttagGCGTATGGTTATTGTAAAGGAGGAGGATAATCCTGTGGATGTCATACCTCA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGCGGACGTCGTATCTGGCGCGGATAGGCGCCTCGGCGGTATCGCTCTCGCTGGAGATGGACGCCTTCTCTGGATCGAGGGCCGCCCCGAGGAGAAAGGgtaaatgaaatccgctcccgaggtttagtggccaaggcgttgacattcgacgcgctcgcgataatgtttctgaaagttttagtgttgctgcttgctagtt

- - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA