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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGGTTGCATATTTCATTGCGCAAGCTCTCGACCATTGCAATGCTGAGAACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAGgtacacaacaggtttgctgacacctcctagtttttactacattttttttctgctggcttttccattgtaactacattttcttctgtgaaaatattttttt...

Basic information

species Zea mays
transcript GRMZM2G054634_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G054634_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os10g42110.1 (Oryza sativa), 5'ss of exon 4
GAGGGTTGCATATTTCATTGCGCAAGCTCTCGACCATTGCAATGCTGAGAACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAGgtacacaacaggtttgctgacacctcctagtttttactacattttttttctgctggcttttccattgtaactacat--tttcttctgtgaa----aatattttttt------------------------------------------------------------------------------------
 |||||||| |||| ||||||||| || ||||| || |||||||| |||||| | |||||||||||||| |||||||||||||| ||||||||||||||||||        | | |||   || | | | |    || || |||| |||||||||  ||| |  |  |    || |  || || |||||||     ||  ||| |                                                                                     
AAGGGTTGCGTATTACATTGCGCAGGCACTCGATCACTGCAATGCCGAGAACCGAAAAATCTATCATGACTTGAATGCTTATAGAGTACTTTTTGATGAGgtatgtttgttgct-gctagtacattccactcaaaac-accttttgtttctgctgattttgcattgcttttcacttccttcctcctgtgaactcggatgctttctgatcaaaatttactactttctgaagctttgctgatgtctgtaactaccgagagaattctaactttggcatgatttattctatcag

upper sequence: GRMZM2G054634_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA05G06140.1 (Glycine max), 5'ss of exon 4
GAGGGTTGCATATTTCATTGCGCAAGCTCTCGACCATTGCAATGCTGAGAACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAGgtacacaacaggtttgctgacacctcctagtttttactacattttttttctgctggcttttccattgtaactacattttcttctgtgaaa-atattttttt--------
 || ||||||||     |||| || || || || ||||| |     || ||| | ||||| ||||||||| ||||||| |||||| | |||||||||||||||        | |||  |  | ||   | | |  ||||  | ||| || ||     | |  ||  ||   | || ||| |  ||||||| ||||| |           
CAGAGTTGCATACCATGTTGCCCAGGCACTAGATCATTGTAGCTTGGAAAACCGTAAAATATATCATGATCTGAATGCATATAGGATTCTTTTTGATGAGgta-------agattg--ggaatctatcattatgaactaattgtttgttttgtatattatggcaccgtgttttcagtttttgttgtgaaatatattctgcatgatgcat

upper sequence: GRMZM2G054634_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA17G16420.1 (Glycine max), 5'ss of exon 4
GAGGGTTGCATATTTCATTGCGCAAGCTCTCGACCATTGCAATGCTGAGAACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAGgtac-acaacaggtttgctgacac---ctcctagtttttactacattttttttctgctggcttttccattgtaactacattttcttctgtgaaaatattttttt
 || ||||||||     |||| || || || || ||||| |     || |||   ||||| ||||||||| ||||||| |||||| | |||||||||||||||  |  |    | |      |    |||  | | |||  || ||| | |  |       |      ||||    | || |  |||||    |    |||   
CAGAGTTGCATACCATGTTGCCCAGGCACTAGATCATTGTAGCTTGGAAAACCATAAAATATATCATGATCTGAATGCATATAGGATTCTTTTTGATGAGgtaagattatgaatctatcattatgaactctcattgttttgtatattatgtcaccatattttcagtgtttgttgtgaaatata-ttctgcatgatccattt---

upper sequence: GRMZM2G054634_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv02s0012g01140.t01 (Vitis vinifera), 5'ss of exon 4
GAGGGTTGCATATTTCATTGCGCAAGCTCTCGACCATTGCAATGCTGAGAACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAGgtacacaacaggtttgctgacacctcctagtttttactacattttttttctg-ctggcttttccattgtaactacattttcttctgtgaaaatattttttt-
||| ||||||||||  ||||| || || || || ||||| ||| | || ||| |||| |||||||||||||||||||| ||||| || |||||||||||||||    |    ||  ||  | | || |  || ||| |     |||  | || || |    |      |    | ||| | || | |||| | |||   |  
GAGAGTTGCATATTATATTGCTCAGGCACTTGATCATTGTAATACAGAAAACCGGAAGATCTATCATGATTTGAATGCATATAGAGTTCTTTTTGATGAGgtaagtcatgaattatct--ctcttcatgtttcttattgttgatttgctatgtctaggggctgatacatcttcagattcttttatttgaatacattagatca

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|89248037|gb|DY619823.1|DY619823
EST:     ACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAG                         GAAGGTGATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGAT
genomic: ACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAGgtacacaaca ... tccctatcagGAAGGTGATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGAT
EST: gi|211485328|gb|FL295172.1|FL295172
EST:     ACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAG                         GAAGGTGATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGAT
genomic: ACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAGgtacacaaca ... tccctatcagGAAGGTGATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGAT
EST: gi|71760095|gb|DR958032.1|DR958032
EST:     ACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAG                         GAAGGTGATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGAT
genomic: ACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAGgtacacaaca ... tccctatcagGAAGGTGATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGAT
EST: gi|211485330|gb|FL295174.1|FL295174
EST:     ACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAG                         GAAGGTGATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGAT
genomic: ACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAGgtacacaaca ... tccctatcagGAAGGTGATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGAT
EST: gi|211485329|gb|FL295173.1|FL295173
EST:     ACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAG                         GAAGGTGATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGAT
genomic: ACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAGgtacacaaca ... tccctatcagGAAGGTGATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGAT
EST: gi|78122641|gb|DV541025.1|DV541025
EST:     ACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAG                         GAAGGTGATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGAT
genomic: ACAGGAAAATCTATCATGATTTGAATGCTTATAGGGTACTTTTTGATGAGgtacacaaca ... tccctatcagGAAGGTGATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGAT
EST: gi|32930139|gb|CF034951.1|CF034951
EST:     ACTTTTTGATGAG                         GAAGGTGATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGAT
genomic: ACTTTTTGATGAGgtacacaaca ... tccctatcagGAAGGTGATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGAT