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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggatttcattttcatgctagatctattagatatgctataataatgtgagtatgctagtcaaattgacaactgtgttatatttttttatattcgttaatttttttatggctgtcattgaccaaattttgtgttgctttgcagGACTCCTGGAAGACCTCGGTTCTGCTCCTTCAGGTTCAATTGTACTGCTGCATGCCTGTGCTCACAACCCTACTGGAGTAGATCCTACCATCGAACAGTG

Basic information

species Zea mays
transcript GRMZM2G094712_T04
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G094712_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g55540.1 (Oryza sativa), 3'ss of exon 6
gtatggatttcattttcatgctagatctattagatatgctataataatgtgagtatgc--tagtcaaattgacaactgtgttatatttttttatattcgttaatttttttatggctgtcattgaccaa--attttgtgttgctttgcagGACTCCTGGAAGACCTCGGTTCTGCTCCTTCAGGTTCAATTGTACTGCTGCATGCCTGTGCTCACAACCCTACTGGAGTAGATCCTACCATCGAACAGTG
                                         ||  ||| | | | | |  | |   || |      | ||    |  ||  | |    | |  |||     || ||| | |||| |||  || |  | | |  || |||| ||  | ||||| |||||||| |||||||||||| ||||||||||||| ||||| ||||| |||||||||||||||||||| || ||  | || |||||
----------------------------------------gtaccaatttcaattttccatggaggaacttgttcttatgaagaagattaat-tgcaagattgtttgcacctgtctgac-ttgatcaaggatgtgttttcgtgttacagGGCTGTTAGAAGATCTCGGTTCAGCTCCTTCAGGTGCAATTGTACTGCTTCATGCTTGTGCCCACAACCCTACTGGAGTAGACCCAACTTTGGACCAGTG
















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|67021032|gb|CO449781.1|CO449781
EST:     TAGGAGCTACCGCTATTATGATCCTGCAACATGCAGCCTTCACTTCGAAG                         GACTCCTGGAAGACCTCGGTTCTGCTCCTTCAGGTTCAATTGTACTGCTGC
genomic: TAGGAGCTACCGCTATTATGATCCTGCAACATGCAGCCTTCACTTCGAAGgtatggattt ... tgctttgcagGACTCCTGGAAGACCTCGGTTCTGCTCCTTCAGGTTCAATTGTACTGCTGC
EST: gi|6021165|gb|AW066093.1|AW066093
EST:     AGGAGCTACCGCTATTATGATCCTGCAACATGCAGCCTTCACTTCGAAG                         GACTCCTGGAAGACCTCGGNTCTGCTCCTTCAGGTTCAATTGTACTGCTGC
genomic: AGGAGCTACCGCTATTATGATCCTGCAACATGCAGCCTTCACTTCGAAGgtatggattt ... tgctttgcagGACTCCTGGAAGACCTCGGTTCTGCTCCTTCAGGTTCAATTGTACTGCTGC
EST: gi|67030857|gb|CO459606.1|CO459606
EST:     TAGGAGCTACCGCTATTATGATCCTGCAACATGCAGCCTTCACTTCGAAG                         GACTCCTGGAAGACCTCGGTTCTGCTCCTTCAGGTTCAATTGTACTGCTGC
genomic: TAGGAGCTACCGCTATTATGATCCTGCAACATGCAGCCTTCACTTCGAAGgtatggattt ... tgctttgcagGACTCCTGGAAGACCTCGGTTCTGCTCCTTCAGGTTCAATTGTACTGCTGC
EST: gi|67016138|gb|CO444887.1|CO444887
EST:     TGCATCCTTCACTTCGAA-                         GACTCCTGGAAGACCTCGGTTCTGCTCCTTCAGGTTCAATTGTACTGCTGC
genomic: TGCAGCCTTCACTTCGAAGgtatggattt ... tgctttgcagGACTCCTGGAAGACCTCGGTTCTGCTCCTTCAGGTTCAATTGTACTGCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atattcgttaatttttttatggctgtcattgaccaaattttgtgttgctttgcagGACTCCTGGAAGACCTCGGTTCTGCTCCTTCAGGTTCAATTGTACTGCTGCATGCCTGTGCTCACAACCCTACTGGAGTAGATCCTACCATCGAACAGTG
                          cattgac  putative branch site (score: 3)
                                            ttgcttt  putative PPT
       ttaatttttttat  TA-rich tract