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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtagtttggttaatatgatgcctagcatctctatattattatgtcatgtggcaactttccttgaaattcttgttacttgttttttcctatctagtcaattttgcattacaaaaaacttacgaatccatcgaatcattattgcttgctagaattgataaatcaatatattattcattcttttggtttctgcagAAATAATTGTTTCAGGAGGGATGACCATGCCTCAGGTGATTGCATCACTGGAGCCCATGCCACGGAAAAGCCAGAACATTCGTCTAAATAGAATGACGTG

Basic information

species Zea mays
transcript GRMZM2G046098_T05
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G046098_T05 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g64780.4 (Oryza sativa), 3'ss of exon 5
----gtatggtagtttggttaatatgatgcctagcatctctatattattatgtcatgtggcaactttccttgaaattcttgttacttgttttttcctatctagtcaattttgcattacaaaaaacttacgaatccatcgaatcattattgcttgctagaattgataaatcaatatattattcattcttttggtttctgcagAAATAATTGTTTCAGGAGGGATGACCATGCCTCAGGTGATTGCATCACTGGAGCCCATGCCACGGAAAAGCCAGAACATTCGTCTAAATAGAATGACGTG
    ||       | | | | || |  |  ||   |   | |||||      ||||||| | | ||| || |    || |||   |  ||| |  ||   |||       || || | ||||   |   |||  ||    | |  | |   |  ||| ||||  |||  || | | ||  |  |  || ||  |  | |||||||||||||||| ||||| ||||| ||||| |||||||| || || || || ||||  ||| |||| |||||||| || |||||||||||||| | |  
gttggttctcctatcttgcttatgtactatctcctactgcaatattgcatgatcatgtg-ctattttactggtttctcctgtgcttaatttctctctgcatagag-----tggatgataaaaccttcctgaagtcaatcgacccatgtaatt--cta-aatttctaatacagtgtttttcttttctttctgcatcattcagAAATAATTGTTTCTGGAGGAATGACTATGCCACAGGTGATCGCGTCCCTTGAACCCACCCCAAGGAAGAGCCAGAATATCCGTCTAAATAGAATAATGAC
















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|166607557|gb|EG324001.1|EG324001
EST:     CTCTGAGGAGGTCATAAGACCTAATTTATCTATTCGAGAAGGAATCG                         AAATAATTGTTTCAGGAGGGATGACCATGCCTCAGGTGATTGCATCAC
genomic: CTCTGAGGAGGTCATAAGACCTAATTTATCTATTCGAGAAGGAATCGgtatggtagt ... gtttctgcagAAATAATTGTTTCAGGAGGGATGACCATGCCTCAGGTGATTGCATCAC
EST: gi|91053372|gb|EB163790.1|EB163790
EST:     GAACTCTGAGGAGGTCATAAGACCTAATTTATCTATTCGAGAAGGAATCG                         AAATAATTGTTTCAGGGGGGATGACCATGCCTCAGGTGATTGCATCACTGG
genomic: GAACTCTGAGGAGGTCATAAGACCTAATTTATCTATTCGAGAAGGAATCGgtatggtagt ... gtttctgcagAAATAATTGTTTCAGGAGGGATGACCATGCCTCAGGTGATTGCATCACTGG
EST: gi|60398318|gb|DN231134.1|DN231134
EST:     GAATTTTGAGGAGGTCATAAGACCTAATTTATTTATTCGAGAAGGAATCG                         AAATAATTGTTTCAGGAGGGATGACCATGCCTCAGGTGATTGCATCACTGG
genomic: GAACTCTGAGGAGGTCATAAGACCTAATTTATCTATTCGAGAAGGAATCGgtatggtagt ... gtttctgcagAAATAATTGTTTCAGGAGGGATGACCATGCCTCAGGTGATTGCATCACTGG
EST: gi|148944675|gb|EC889811.2|EC889811
EST:     GAACTCTGAGGAGGTCATAAGACCTAATTTATCTATTCGAGAAGGAATCG                         AAATAATTGTTTCAGGAGGGATGACCATGCCTCAGGTGATTGCATCACTGG
genomic: GAACTCTGAGGAGGTCATAAGACCTAATTTATCTATTCGAGAAGGAATCGgtatggtagt ... gtttctgcagAAATAATTGTTTCAGGAGGGATGACCATGCCTCAGGTGATTGCATCACTGG
EST: gi|148949550|gb|EC895017.2|EC895017
EST:     GAACTCTGAGGAGGTCATAAGACCTAATTTATCTATTCGAGAAGGAATCG                         AAATAATTGTTTCAGGAGGGATGACCATGCCTCAGGTGATTGCATCACTGG
genomic: GAACTCTGAGGAGGTCATAAGACCTAATTTATCTATTCGAGAAGGAATCGgtatggtagt ... gtttctgcagAAATAATTGTTTCAGGAGGGATGACCATGCCTCAGGTGATTGCATCACTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgcttgctagaattgataaatcaatatattattcattcttttggtttctgcagAAATAATTGTTTCAGGAGGGATGACCATGCCTCAGGTGATTGCATCACTGGAGCCCATGCCACGGAAAAGCCAGAACATTCGTCTAAATAGAATGACGTG
            aattgat  putative branch site (score: 4)
                                     ttcttttggtttct  putative PPT
         tagaattgataaatca  TA-rich tract