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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctatacatatcctgccatatacacatgtaaatttgcttgagttagtcttaaatctatgaaaatcgtagcgagctttcataccaatttttgttacatctagGTTCAATATCCTGGATTGGAGCAGCGAATGAAGATAGACATTATGACAATGTCATTCTTGTCAAAAATGGTCTCTTGGGTATGAACACCAACATTTTGTT

Basic information

species Zea mays
transcript GRMZM2G040720_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G040720_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g34750.1 (Oryza sativa), 3'ss of exon 6
----ctatacat-atcctgccatatacacatgtaaatttgcttgagttagtcttaaatctatgaaaatcgtagcgagctttcataccaatttttgttacatctagGTTCAATATCCTGGATTGGAGCAGCGAATGAAGATAGACATTATGACAATGTCATTCTTGTCAAAAATGGTCTCTTGGGTATGAACACCAACATTTTGTT
    |  | ||| ||    | |||    | ||  |  |||  |   || || |   || |||   |||| ||| |  | | |||   || |   ||  ||| |||||||||||||||||  | |||| ||| |||||||||||||| ||||| ||||| ||||||||||||    ||||||||                      
atgccatttcattatttccctataatgtcttgctacattgtctttcttggtgt-gcatgtatattaatc-tagaggacctccatcttaact---gtgtcatatagGTTCAATATCCTGGGCTTGAGCGGCGCATGAAGATAGACATAATGACTATGTCTTTCTTGTCAAAATCTCTCTCTTGG----------------------

upper sequence: GRMZM2G040720_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g34830.1 (Oryza sativa), 3'ss of exon 3
---ctatacat-atcctgccatatacacatgtaaat-ttgcttgagttagtcttaaatctatgaaaatcgtagcgagctttcataccaatttttgttacatctagGTTCAATATCCTGGATTGGAGCAGCGAATGAAGATAGACATTATGACAATGTCATTCTTGTCAAAAATGGTCTCTTGGGTATGAACACCAACATTTTGTT
   |  | ||| ||    | |||    | || |||  |||  |   || || |   || |||   |||| ||| |   || |||   || |   ||  ||| |||||||||||||||||  | |||| ||| |||||||||||||| ||||| ||||| ||||||||||||   |||||||||                      
tgccatttcatcatttccctataatgtcttgcaaacattgtctttcttggtgt-gcatgtatattaatc-tagaggatttccatcttaact---gtgtcatatagGTTCAATATCCTGGGCTTGAGCGGCGCATGAAGATAGACATAATGACTATGTCTTTCTTGTCAAAATCTGTCTCTTGG----------------------
















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|148944932|gb|EC890093.2|EC890093
EST:     CTCAGGTTCATCGAGGTCGATTGCATAACAATCAAGATGTAGCTGTCAAG                         GTTCAATATCCTGGATTGGAGCAGCGAATGAAGATAGACATTATGACAATG
genomic: CTCAGGTTCATCGAGGTCGATTGCATAACAATCAAGATGTAGCTGTCAAGgtgaggttct ... ttacatctagGTTCAATATCCTGGATTGGAGCAGCGAATGAAGATAGACATTATGACAATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttaaatctatgaaaatcgtagcgagctttcataccaatttttgttacatctagGTTCAATATCCTGGATTGGAGCAGCGAATGAAGATAGACATTATGACAATGTCATTCTTGTCAAAAATGGTCTCTTGGGTATGAACACCAACATTTTGTT
                                       tttttgtt  CT-rich tract
                                     aatttttgttacat  TA-rich tract