Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTAATGCATACTGGCTATTGCTCGCCTACGTCCTCCCCTCCCCCATCTGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGAgtaagtttccattctttttgtgaaagctcaatctgacatggttaagacatatgattgaataagtactcgtataatgtggtatttatcccag

Basic information

species Zea mays
transcript GRMZM2G464000_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G464000_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os07g29450.1 (Oryza sativa), 5'ss of exon 6
TGCTAATGCATACTGGCTATTGCTCGCCTACGTCCTCCCCTCCCCCATCTGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGAgtaagtttccattcttttt--gtgaaa--gctcaatctgacatggttaagaca-tatgattgaataagt---actcgtataatg--tggtatttatcccag
|||| ||||||||||| || ||||| ||||| || || ||||| |||||||| ||||||||||| |  |||||||||| ||||||||| |||||||| ||||||  | |||||||| |  ||  ||    |  |  | | | ||| |   || ||||  | ||| |||   ||| ||||||    || | |   | ||||
TGCTTATGCATACTGGTTACTGCTCCCCTACATCATCACCTCCACCATCTGCAATCCAAGAGCTACGAGCAACTGTTCGAGTTCTACCGCCACAAGACAgtaagccttcattctttgtcagtccaattattagacttaaaaaggtcagagcaatatggctaaattagtagtacttgtataacacttgatctaccttccag
















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|32823438|gb|CD963160.1|CD963160
EST:     TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGA                         GTTATACTTCAACATTGAGGAACAACGTACGCTCACGTGCTTGGGGTGCTG
genomic: TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGAgtaagtttcc ... tttatcccagGTTATACTTCAACATTGAGGAACAACGTACGCTCACGTGCTTGGGGTGCTG
EST: gi|26558158|gb|CA830393.1|CA830393
EST:     TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGA                         GTTATACTTCAACATTGAGGAACAACGTACGCTCACGTGCTTGGGGTG
genomic: TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGAgtaagtttcc ... tttatcccagGTTATACTTCAACATTGAGGAACAACGTACGCTCACGTGCTTGGGGTG
EST: gi|67024103|gb|CO452852.1|CO452852
EST:     TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGA                         GTTATACTTCAACATTGAGGAACAACGTACGCTCACGTGCTTGGGGTGCTG
genomic: TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGAgtaagtttcc ... tttatcccagGTTATACTTCAACATTGAGGAACAACGTACGCTCACGTGCTTGGGGTGCTG
EST: gi|58029867|gb|CX725294.1|CX725294
EST:     TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGA                         GTTATACTTCAACATTGAGGAACAACGTACGCTCACGTGCTTGGGGTGCTG
genomic: TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGAgtaagtttcc ... tttatcccagGTTATACTTCAACATTGAGGAACAACGTACGCTCACGTGCTTGGGGTGCTG
EST: gi|21987866|gb|BQ779394.1|BQ779394
EST:     TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGA                         GTTATACTTCAACATTGAGGAACAACGTACGCTCAC
genomic: TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGAgtaagtttcc ... tttatcccagGTTATACTTCAACATTGAGGAACAACGTACGCTCAC
EST: gi|32931653|gb|CF036465.1|CF036465
EST:     TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGA                         GTTATACTTCAACATTGAGGAACAACGT
genomic: TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGAgtaagtttcc ... tttatcccagGTTATACTTCAACATTGAGGAACAACGT
EST: gi|78077940|gb|DV506360.1|DV506360
EST:     GCAACTGTTCAAGTTCTACCACCACAAGAGA                         GTTATACTTCAACATTGAGGAACAACGTACGCTCACGTGCTTGGGGTGCTG
genomic: GCAACTGTTCAAGTTCTACCACCACAAGAGAgtaagtttcc ... tttatcccagGTTATACTTCAACATTGAGGAACAACGTACGCTCACGTGCTTGGGGTGCTG
EST: gi|32822990|gb|CD962699.1|CD962699
EST:     TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGA                         GTTATACTTCAACATTGAGGAACAACGTACGCTCACGTGCTTGGGGTGCTG
genomic: TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGAgtaagtttcc ... tttatcccagGTTATACTTCAACATTGAGGAACAACGTACGCTCACGTGCTTGGGGTGCTG
EST: gi|32934961|gb|CF039773.1|CF039773
EST:     TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGA                         GTTATACTTCAACATTGAGGAACAACGTA
genomic: TGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGAgtaagtttcc ... tttatcccagGTTATACTTCAACATTGAGGAACAACGTA

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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCTAATGCATACTGGCTATTGCTCGCCTACGTCCTCCCCTCCCCCATCTGCCATCCAAGAGCTTCATGCAACTGTTCAAGTTCTACCACCACAAGAGAgtaagtttccattctttttgtgaaagctcaatctgacatggttaagacatatgattgaataagtactcgtataatgtggtatttatcccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA