Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAGAATACAGTGGGGTCAAGGTTGAGTTGACCAAGGATTTTGAGATGGGTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatgcaccaatcattatctttgaatactttggttcatgatctaacaattactcttcag

Basic information

species Zea mays
transcript GRMZM2G059580_T03
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G059580_T03 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os06g37440.1 (Oryza sativa), 5'ss of exon 3
TGCAGAATACAGTGGGGTCAAGGTTGAGTTGACCAAGGATTTTGAGATGGGTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtaca-gcatgca-ccaatcattatctttg---aatactttggttcatg-----atctaacaattactcttcag--
|||||| |||| ||| |||||||| ||| |||||||| ||||||||||||||||||| |||||||||||||||||||| ||||||||||||||||||||||||   | ||| |    || ||||  ||||   ||||   ||  ||| |     |   |  ||| | ||||     
TGCAGAGTACACTGGAGTCAAGGTCGAGCTGACCAAGAATTTTGAGATGGGTGTCTCAAACAAGACCCCTGAGTTTCTCAAGATGAACCCCCTTGGGAAGgtatgcgaatgtaatttataattagatttgtccaataaagtgaatcagggagacagggactaatcattctttgcag
















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|31350377|gb|CD434734.1|CD434734
EST:     GTGTCTCGAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
genomic: GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
EST: gi|31356573|gb|CD440930.1|CD440930
EST:     GTGTCTCGAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
genomic: GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
EST: gi|19822159|gb|BQ048183.1|BQ048183
EST:     AACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTGTTTGAGAGTAATGCTATT
genomic: AACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
EST: gi|31356567|gb|CD440924.1|CD440924
EST:     GTGTCTCGAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
genomic: GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
EST: gi|22935604|gb|BU571879.1|BU571879
EST:     GTGTCTCGAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
genomic: GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
EST: gi|31351288|gb|CD435645.1|CD435645
EST:     GTGTCTCGAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
genomic: GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
EST: gi|26455900|gb|CA827483.1|CA827483
EST:     GTGTCTCGAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
genomic: GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
EST: gi|67012465|gb|CO441214.1|CO441214
EST:     GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAG                         GTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT
genomic: GTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatg ... tactcttcagGTTCCTGTTCTGGAGACTCCTGATGGCCCTGTTTTTGAGAGTAATGCTATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCAGAATACAGTGGGGTCAAGGTTGAGTTGACCAAGGATTTTGAGATGGGTGTCTCCAACAAGACCCCTGAGTTTCTAAAGATGAACCCCCTTGGGAAGgtacagcatgcaccaatcattatctttgaatactttggttcatgatctaacaattactcttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG