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'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACATGGTCGCTAACCCCAAGACATTCCCATCCGGAATCAAGGCCCTGGCAGATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctctctccccctctcttctccttcaaacaagttccgatttttttgaaatcgctcacaagtgggaatgaattcacccataataccaaagtttccgctacaaggaataggataagtgtatctgttgaactgaaaccggacttctttccttaaattgcag

Basic information

species Zea mays
transcript GRMZM2G146463_T01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G146463_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os07g26900.1 (Oryza sativa), 5'ss of exon 4
ACATGGTCGCTAACCCCAAGACATTCCCATCCGGAATCAAGGCCCTGGCAGATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctctctccccctctcttctccttcaaaca-agttccgatttttttgaaatcgctcacaagtgggaatgaattcacccataataccaaagtttccgctacaaggaataggataagtgtatctgttgaactgaaaccggacttctttccttaaattgcag
|||| |  ||| | || ||||  ||||| || || || ||||| || |||||||| || ||||||||||||||||| || ||||| |||||||| || ||||| ||  | | |   |         |      | |  |||   ||||  |     |    |  ||  || | ||  |||    | ||||   |                                                                       
ACATAGCTGCTGATCCAAAGAAGTTCCCTTCGGGGATTAAGGCACTCGCAGATTATGTGCACAGCAAGGGGCTTAAACTAGGCATATACTCTTCAGCCGGgtaagtaatatatagtctcaagaaaacaagaggaaatggttgttatttcatcatgctaaaacggaatcggaattgttttcgt--acaatattcag----------------------------------------------------------------------

upper sequence: GRMZM2G146463_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA18G44820.1 (Glycine max), 5'ss of exon 5
-ACATGGTCGCTAACCCCAAGACATTCCCATCCGGAATCAAGGCCCTGGCAGATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctctctccccctctcttctccttcaaacaagttccgatttttttgaaatcgctcacaagtgggaatgaattcacccataataccaaagtttccgctacaaggaataggataagtgtatctgttgaactgaaaccggacttctttccttaaattgcag
 |  |||| || ||       || || || || |||||||| || || |||||||| |||||| ||||||| ||||||||||| || || ||    ||||||||| |   ||   ||   | | |  | |     || || |     ||||  || ||  |   || |  |  | |  |    ||   |  ||                                                                        
AATCTGGTAGCAAAAAATTCAACGTTTCCTTCTGGAATCAAAGCTCTTGCAGATTATGTTCACGGCAAGGGTCTTAAGCTTGGAATTTATTCAGATGCTGggtacatagacttggccaaacacctaacttagtcccatgtgc-----ttttccaactctttttaaactaagctttaggttggtcaattttgca------------------------------------------------------------------------

upper sequence: GRMZM2G146463_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA09G40990.1 (Glycine max), 5'ss of exon 5
ACATGGTCGCTAACCCCAAGACATTCCCATCCGGAATCAAGGCCCTGGCAGATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctctctccccctctcttctccttcaaacaagttccgatt--tttttgaaatcgctcacaagtgggaatgaattcacccataataccaaagtttccgctacaaggaataggataagtgtatctgttgaactgaaaccggacttctttccttaaattgcag
|  |||| || ||       ||||| || || |||||||| || || |||||||| |||||||||||||| ||||||||||| || || ||    ||||||||| |   ||   ||   | | |  ||   |||   |||||   |  |||||  ||   ||   || |  |  | |  |    ||   |  ||                                                                        
ATCTGGTAGCAAAAAAATCAACATTTCCTTCTGGAATCAAAGCTCTTGCAGATTATGTTCACAGCAAGGGTCTTAAGCTTGGAATTTATTCAGATGCTGGgtacatagacttagccaaacacctaacc---aaattcgttccatgtgcttttttcaactacttttaactaagctttaggttggtcaattttgcag-----------------------------------------------------------------------

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|76930345|gb|DV172346.1|DV172346
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|89250668|gb|DY622454.1|DY622454
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACCAGAACTTTGC-GCAACAGGATGCCTGGATCTCTGGGCTACCAGGAAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTT-GCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGA-G
EST: gi|78113279|gb|DV531671.1|DV531671
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|91054335|gb|EB164753.1|EB164753
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|23199550|gb|BU582115.1|BU582115
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|26560002|gb|CA832237.1|CA832237
EST:     AAGGGGCTTAAGCTT-GCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAAGAGAA
genomic: AAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|22935898|gb|BU572173.1|BU572173
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|71431665|gb|DR812715.1|DR812715
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|78108215|gb|DV526633.1|DV526633
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|149055656|gb|EE156361.2|EE156361
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|101386530|gb|EB815281.1|EB815281
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|71442888|gb|DR823938.1|DR823938
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCCTCTGGGCTACGAGGAGA
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATC-TCTGGGCTACGAGGAGA
EST: gi|78075209|gb|DV503643.1|DV503643
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|71442889|gb|DR823939.1|DR823939
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|71435988|gb|DR817038.1|DR817038
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGG
EST: gi|78088431|gb|DV516824.1|DV516824
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|29947680|gb|CB816781.1|CB816781
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|71428787|gb|DR809837.1|DR809837
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|26559550|gb|CA831785.1|CA831785
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GCACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGA
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagG-ACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGA
EST: gi|37424719|gb|CF650092.1|CF650092
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTA
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTA
EST: gi|71443418|gb|DR824468.1|DR824468
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|71443280|gb|DR824330.1|DR824330
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|71318127|gb|DR795825.1|DR795825
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|148940241|gb|EC885013.2|EC885013
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|91875282|gb|EB405239.1|EB405239
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|74238712|gb|DT646626.1|DT646626
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|76011884|gb|DT939054.1|DT939054
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|149009677|gb|EE041609.2|EE041609
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|78110547|gb|DV528957.1|DV528957
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|148973153|gb|EE024223.2|EE024223
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|149013904|gb|EE043402.2|EE043402
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|89763957|gb|DY690934.1|DY690934
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
EST: gi|50334852|gb|CO529978.1|CO529978
EST:     GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGG                         GACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG
genomic: GATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctc ... taaattgcagGACAAGAACTTGCAGCAACAGGATGCCTGGATCTCTGGGCTACGAGGAGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACATGGTCGCTAACCCCAAGACATTCCCATCCGGAATCAAGGCCCTGGCAGATTACGTTCACAGCAAGGGGCTTAAGCTTGGCATCTACTCTTCCGCTGGgtacgttctctctccccctctcttctccttcaaacaagttccgatttttttgaaatcgctcacaagtgggaatgaattcacccataataccaaagtttccgctacaaggaataggataagtgtatctgttgaactgaaaccggacttctttccttaaattgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG