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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcctgatgcctggcctgcaaaattattctggttgtttcttttgttttctgggaacataacaaaacttatctgatgcatgtatggtcttttccttcaacagTCACACAGCTGCAATTGCTGCTGGAAACAATGGGGTCCCAGTGCGAATGCATGGTCACGAATTTGGCAAGGCAAGTGGTATGGCCCCACGTGCTAG

Basic information

species Zea mays
transcript GRMZM2G114394_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G114394_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os06g48650.3 (Oryza sativa), 3'ss of exon 3
-----------------------------------------------------------tcctgatgcctggcctg--caaaa------ttattctggttgtttcttttgttttctggga--acataacaaaac---ttatctgatgcatgtatggtcttttccttcaacagTCACACAGCTGCAATTGCTGCTGGAAACAATGGGGTCCCAGTGCGAATGCATGGTCACGAATTTGGCAAGGCAAGTGGTATGGCCCCACGTGCTAG
                                                            | |||    ||  |||  ||||        |||||||||||| | |  | ||     | |   ||| ||  | |   ||||||||| ||   |||  |||| |||| |||||||| ||||| ||||||||||||||||| |||||| | ||||| |||||||||||||||||||||||||| |||||||||||||| |||||||||||
gtcatgctcctaattaatatatgttctgttctagtttcttataccaagaaaaatgccatacatgaaaattgttctgtccaaagaattagctattctggttgtgtttcatcttgagaagaatggcatgacttatctagttatctgatacaaagatg--ctttcccttaaacagTCATACAGCAGCAATTGCTGCTGGAAATAATGGGATTCCAGTACGAATGCATGGTCACGAATTTGGCAAAGCAAGTGGTATGGCTCCACGTGCTAG

upper sequence: GRMZM2G114394_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv11s0103g00550.t01 (Vitis vinifera), 3'ss of exon 4
tcctgat-gcctggcctgcaaa-attattctggtt--gtttcttttgttttctgggaacataacaaaacttatctgatgcatgtatggtcttttccttcaacagTCACACAGCTGCAATTGCTGCTGGAAACAATGGGGTCCCAGTGCGAATGCATGGTCACGAATTTGGCAAGGCAAGTGGTATGGCCCCACGTGCTAG
   |||| |  ||   | |    | |||| || |    |||  | |||||| |  ||      |     | || || ||  | | |||   |      ||||||||||||||| || ||||| |||||||| |||||  | |||||| ||||||||||  | |||||||| || |||||||| ||||| || ||||| ||
--atgatagtttgattttcttttaatattttgttcccatttactctgttttatttgattgggtctgg-ttcatttgttgtttct-tgggaatactggacaacagTCACACAGCAGCTATTGCAGCTGGAAATAATGGAATTCCAGTGAGAATGCATGGGTATGAATTTGGGAAAGCAAGTGGGATGGCTCCCCGTGCCAG
















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|31351455|gb|CD435812.1|CD435812
EST:     AATCCCGATGTTGAATTTGCATCTCCATTAGATGGTGATGGTCATGGAAG                         TCACACAGCTGCAATTGCTGCTGGAAACAATGGGGTCCCAGTGCGAATGCA
genomic: AATCCCGATGTTGAATTTGCATCTCCATTAGATGGTGATGGTCATGGAAGgtcatgatcc ... ccttcaacagTCACACAGCTGCAATTGCTGCTGGAAACAATGGGGTCCCAGTGCGAATGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctgggaacataacaaaacttatctgatgcatgtatggtcttttccttcaacagTCACACAGCTGCAATTGCTGCTGGAAACAATGGGGTCCCAGTGCGAATGCATGGTCACGAATTTGGCAAGGCAAGTGGTATGGCCCCACGTGCTAG
                                    tggtcttttccttc  CT-rich tract
          ataacaaaacttat  TA-rich tract