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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagttatttttactttttgcatttacaatttcaaatttgaccaaaccaagggacattctagaacttttactaaacttgtatacaactctgtattgcttgaatcagGTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATGGTCAGCATGCTCCTTTATGTCTGGAGCCGAGAGAATCCAAATGCTCAGA

Basic information

species Zea mays
transcript GRMZM2G117388_T04
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G117388_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g09550.3 (Oryza sativa), 3'ss of exon 3
gtcagttatttttactttttgcatttacaatttcaaatttgaccaaaccaagggacattctagaacttttactaaact--tgtatacaactctgtattgcttgaatcagGTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATGGTCAGCATGCTCCTTTATGTCTGGAGCCGAGAGAATCCAAATGCTCAGA
|| | | || || | | | || || | || | || ||| | |||| | || ||| | | | ||| || ||| | ||||||| |||||| ||||| ||||||| | | || || |||||| ||| |||| |||||||||||||| ||||||||||||||| |||| |||| ||| ||||||
----gtcagtgctagcttgtac-tgtatttttagcagcttaatcagaccttaaaa-attcaattcattggactcacatactacatataaatctttcttgcttggatcagGCATTGTCAGCTATTCCCTTCCTGGATATTTATTTCTTGGGAGTACCCATGGTCAGCATGCTTCTTTATGTCTGGAGCAGAGAATATCCGAATTCTCAGA
















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|32919438|gb|CF024250.1|CF024250
EST:     GGACTGCAGATTTCTTATGGATGATGATATTTGGTGCCATCTCACTATTG                         GTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATG
genomic: GGACTGCAGATTTCTTATGGATGATGATATTTGGTGCCATCTCACTATTGgtcagttatt ... cttgaatcagGTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATG
EST: gi|211211598|gb|FL477381.1|FL477381
EST:     TATGGATGATGATATTTGGTGCCATCTCACTATTG                         GTGTTGTCTATTATCCCCCTATTCAA-TCTTTTTTCTTAGGAATACNTATG
genomic: TATGGATGATGATATTTGGTGCCATCTCACTATTGgtcagttatt ... cttgaatcagGTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATG
EST: gi|40336279|gb|CK370349.1|CK370349
EST:     TATTTGGTGCCATCTCACTATTG                         GTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATG
genomic: TATTTGGTGCCATCTCACTATTGgtcagttatt ... cttgaatcagGTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATG
EST: gi|60349033|gb|DN216006.1|DN216006
EST:     GGATGATGATATTTGGTGCCATCTCACTATTG                         GTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATG
genomic: GGATGATGATATTTGGTGCCATCTCACTATTGgtcagttatt ... cttgaatcagGTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATG
EST: gi|71767311|gb|DR965248.1|DR965248
EST:     AGACTGCAGATTTCTTATGGATGATGATATTTGGTGCCATCTCACTATTG                         GTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATG
genomic: GGACTGCAGATTTCTTATGGATGATGATATTTGGTGCCATCTCACTATTGgtcagttatt ... cttgaatcagGTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATG
EST: gi|16927150|gb|BM080219.1|BM080219
EST:     TGGATGATGATATTTGGTGCCATCTCACTATTG                         GTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATG
genomic: TGGATGATGATATTTGGTGCCATCTCACTATTGgtcagttatt ... cttgaatcagGTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATG
EST: gi|37392930|gb|CF633718.1|CF633718
EST:     GATGATATTTGGTGCCATCTCACTATTG                         GTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATG
genomic: GATGATATTTGGTGCCATCTCACTATTGgtcagttatt ... cttgaatcagGTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggacattctagaacttttactaaacttgtatacaactctgtattgcttgaatcagGTGTTGTCTATTATTCCCCTATTCAATTCTTTTTTCTTAGGAATACCTATGGTCAGCATGCTCCTTTATGTCTGGAGCCGAGAGAATCCAAATGCTCAGA
                 tactaaa  putative branch site (score: 1)
 ttttactaaa  TA-rich tract