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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattttctcttatgaagttatgatgttgattgaatgtgtggatctgtgctgcatgctggttgatatgagaggctaatttctgaactactgatgctgcctctttagGTTCCTCTTGGATTAGGAATCACATGGGCTGTTGCTTTCGTTCTCACAGCAACTGGAGTTTATAGCTACAAAGGTTGTGATGCAAATATTCCTGCCTCAA

Basic information

species Zea mays
transcript GRMZM2G095611_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G095611_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g63870.1 (Oryza sativa), 3'ss of exon 4
gtaagattttctcttatgaagttatgatgttgattgaatgtgtggatctgtgctgcatgctggt-tgat-atgagaggctaatttctgaactactgatgctgcctctttagGTTCCTCTTGGATTAGGAATCACATGGGCTGTTGCTTTCGTTCTCACAGCAACTGGAGTTTATAGCTACAAAGGTTGTGATGCAAATATTCCTGCCTCAA
|||||||||   || ||  ||||||    ||||   |||   |  |||| ||||      | || |||| |||  |  |||||| |||||||  || ||||||||  ||||||||||||||   |||| |||||||||||| | ||||| ||||| ||||||||||||||||||||||||| |||||||||||||||||||||||||||||
gtaagatttgggctaat--agttat----ttgagctaatacctccatctatgctagtcattagtgtgattatgcaattctaattgctgaacttttggtgctgccttcttagGTTCCTCTTGCTCTAGGGATCACATGGGCTATCGCTTTTGTTCTAACAGCAACTGGAGTTTATAGCTACAGAGGTTGTGATGCAAATATTCCTGCCTCAA

upper sequence: GRMZM2G095611_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA12G09060.1 (Glycine max), 3'ss of exon 6
gtaagattttctcttatgaagttatgatgttgattgaatgtgtggatctgtgctgcatgctggttgatatgagaggctaatttctgaactactgatgctgcctctttagGTTCCTCTTGGATTAGGAATCACATGGGCTGTTGCTTTCGTTCTCACAGCAACTGGAGTTTATAGCTACAAAGGTTGTGATGCAAATATTCCTGCCTCAA
||||| ||     |||  |  |  |       |||     |  | |  ||   |  |   ||  || | | ||    | |||||||   |  | |     |  ||  |||||||||| ||  | | ||| ||||||||  |||||||| | || || | | | |||||||| ||||||||||| |||||||||||||| ||| ||||||
gtaag-ttgaacattacaatatcttac-----attactcttcagtagttgaaataaaatttg--tggtgt-agcaaatgatttctgttttcatcacctaactgct--agGTTCCTCTGGGTCTGGCAATTACATGGGCATTTGCTTTCATGCTGACTGAAGCAGGAGTTTACAGCTACAAAGGGTGTGATGCAAATATACCTTCCTCAA

upper sequence: GRMZM2G095611_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA11G19420.1 (Glycine max), 3'ss of exon 6
gtaagattttc-tcttatgaagttatgatgttgattgaatgtgtggatctgtgctgcatgctggttgatatgagaggctaatttctgaactactgatgctgcctctttagGTTCCTCTTGGATTAGGAATCACATGGGCTGTTGCTTTCGTTCTCACAGCAACTGGAGTTTATAGCTACAAAGGTTGTGATGCAAATATTCCTGCCTCAA
||||| |   | |   |  |  ||| | |  |  || | |   || |          ||  ||  || | |   |   | |||||||   |  | |     |  ||  |||||||||| ||  | | ||| ||||||||  |||||||| | || || | | | |||||||| ||||||||||| ||||||| |||||| ||||||||||
gtaagttgaacattccactatcttacgttactc-ttcagtagttgaa-----ataaaattttg--tggtgtagcaa--tgatttctgttttcttcacctaactgct--agGTTCCTCTGGGTCTGGCAATTACATGGGCATTTGCTTTCTTGCTGACTGAAGCAGGAGTTTACAGCTACAAAGGGTGTGATGTAAATATACCTGCCTCAA

upper sequence: GRMZM2G095611_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv06s0061g01310.t01 (Vitis vinifera), 3'ss of exon 6
gtaagattttctcttatgaa-----gttatgatgttgattgaatgt-gtggatctgtgctgcatgctggttgatatgagaggc-taatttct--------gaactactgatgctgcctctttagGTTCCTCTTGGATTAGGAATCACATGGGCTGTTGCTTTCGTTCTCACAGCAACTGGAGTTTATAGCTACAAAGGTTGTGATGCAAATATTCCTGCCTCAA
||| | || |   |||  ||      || |    |||  | | ||| || ||| | ||  ||||     ||| ||||  |    ||  ||||         |  | |  ||  |      | |||||||| | ||  | | |||||| |||||   ||||||| |||| || |   | |||||||||| ||||||||||||||||| |||| | || ||||| |
gtatgtttattgtttacaaatccacattttatcattgtgtcattgttgttgatttttga-gcatatatcttgttatgccaactgtaccttctttgagtataatttgcctatattttggtgtcagGTTCCTTTGGGTCTGGCAATCACGTGGGCCACTGCTTTCCTTCTGACTGAGGCAGGAGTTTATAACTACAAAGGTTGTGATGTAAATGTACCAGCCTCTA

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|71443802|gb|DR824852.1|DR824852
EST:     ACCTCCGGAAAATAAAGCTATTTGGGTACAGAGTGTTTCTTATTTATGCG                         GTTCCTCTTGGATTAGGAATCACATGGGCTGTTGCTTTCGTTCTCACAGCA
genomic: ACCTCCGGAAAATAAAGCTATTTGGGTACAGAGTGTTTCTTATTTATGCGgtaagatttt ... gcctctttagGTTCCTCTTGGATTAGGAATCACATGGGCTGTTGCTTTCGTTCTCACAGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatgctggttgatatgagaggctaatttctgaactactgatgctgcctctttagGTTCCTCTTGGATTAGGAATCACATGGGCTGTTGCTTTCGTTCTCACAGCAACTGGAGTTTATAGCTACAAAGGTTGTGATGCAAATATTCCTGCCTCAA
                                   tactgat  putative branch site (score: 2)
                                           ctgcctcttt  CT-rich tract
                       taatttct  TA-rich tract