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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttatttcatgacattagtattcttggtgaatagtgatagactactagcaccgtttctcttcgtggtttaggaatcacaaactgttctctgtttgccagGTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGATCTTTATTTGTCTAGAAAGTTGGCTGGGGCATCTTCCCCTGTCAGTGGTT

Basic information

species Zea mays
transcript GRMZM2G159295_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G159295_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g53110.1 (Oryza sativa), 3'ss of exon 5
ttttatttcatgacattagtattcttggtgaatagtgatagacta-ctagcaccgtttctcttcgtggtttaggaatcacaaactgtt--ctctgtttgccagGTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGATCTTTATTTGTCTAGAAAGTTGGCTGGGGCATCTTCCCCTGTCAGTGGTT
 | ||||   |  |||   |  | |   | |   || ||  |||| ||      |||  |  |      ||||  |||||||| ||||   ||| ||||||||||||||||||| ||||||||||||||||| || ||||||||||||||||||||||| ||||| |||||||||||||||||| |||||||||||||||| |
-tctattctcttgcatacttggtgtgtatcacccgttatttactagcttttcttgttcatgctttcctattag--atcacaaaatgtttgttctctttgccagGTGAGAGATGAACTTGAACAATTATTGGACGATGACGATGACATGGCTGATCTTTACTTGTCCAGAAAGTTGGCTGGGGCAGCTTCCCCTGTCAGTGGCT

upper sequence: GRMZM2G159295_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA20G35260.2 (Glycine max), 3'ss of exon 5
ttttatttcatgacattagtattcttggtgaatagtgatagactactagcaccgtttctct-tcgtggtttaggaatcacaaactgttctctgtttgc-cagGTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGATCTTTATTTGTCTAGAAAGTTGGCTGGGGCATCTTCCCCTGTCAGTGGTT---
     ||| |||  | |   |       |||  |||  || |     | || | | | ||  |  |   |     |||||||  | || |    | |  ||||| ||||||||||||||||||||  ||||||| || ||||| |||||||| || ||  |||| |||||   ||||||  || | || || || ||||| |   
--aagtttaatgtgaatgtaaactgccttgatcagttttaaatagaaaacaacatatatccattttccctctcccatcacaagttcttgttatctggtacagGTCAGAGATGAGCTTGAACAATTGCTGGATGATGATGATGATATGGCTGACCTGTACCTGTCAAGAAA---GGCTGGTTCAGCATCACCAGTTAGTGGATCAG

upper sequence: GRMZM2G159295_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA19G34430.1 (Glycine max), 3'ss of exon 5
ttttatttcatgacattagtattcttggtgaatagtgatagactactagcaccgtttctcttcgtggtttaggaatcacaa--act--gttctctgtttgccagGTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGATCTTTATTTGTCTAGAAAGTTGGCTGGGGCATCTTCCCCTGTCAGTGGTT
  |||  |  |    |||   | | ||      | |       | |||  |   ||    | | |  |||     |  ||   |||  | |  || | |   || | || ||||| || ||| |  || | ||||||||||| ||||||||||||||||| || || ||||| |||||||   |||| || ||    ||| | |
--ttaagtagtag--ttaacttacctgtcactgattatccctttcctaataatattagaatccatatttttctgtttccatttacttggctagctttcttgtagATTAGGGATGAACTAGAAAACCTACTTGATGACGACGACGACATGGCTGATCTTTACTTATCAAGAAAATTGGCTGCTTCATCCTCTCCAACTAGTAGCT

upper sequence: GRMZM2G159295_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA10G32350.1 (Glycine max), 3'ss of exon 5
ttttatttcatgacattagtattcttggtgaatagtgatagactactagcaccgtttctc-ttcgtggtttaggaatcacaaactgttctctgtttgc-cagGTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGATCTTTATTTGTCTAGAAAGTTGGCTGGGGCATCTTCCCCTGTCAGTGGTT---
  |  ||| |||  | |   |       |||  |||  ||       | || | | | || || ||   |     |||||||  | || |    | |  ||||| ||||||||||||||||||||  ||||||| || ||||| |||||||| || ||  |||| |||||   ||||||  || | || || || ||||| |   
--tagtttaatgtgactgtaaactgccttgatcagttttaagtagaaaacaacatatatcctttgtccctctcccatcacaagttcttgttatctggtacagGTCAGAGATGAGCTTGAACAATTGCTGGATGATGATGATGATATGGCTGACCTATACCTGTCAAGAAA---GGCTGGTTCAGCATCACCAGTTAGTGGATCAG

upper sequence: GRMZM2G159295_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv05s0020g04720.t01 (Vitis vinifera), 3'ss of exon 5
ttttatttcatgacattagtattcttggtgaatagt--gatagactactagcaccgtttctcttcgtggtttaggaatcacaaactgttct---ctgtttgccagGTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGATCTTTATTTGTCTAGAAAGTTGGCTGGGGCATCTTCCCCTGTCAGTGGTT
    ||||     ||  || | |  || | |||  |  | |  | |  ||           |||     |  ||   ||| |   || ||    ||| |||| ||||||| ||||||||||||||| |  ||||||| || ||||| ||||||||||||||| |||| ||||| |||||||| |||||||| || || || || |
--acattttccatcagcagcagt--tgatcaattatctgctcaatttgtatgcttcacagccttaacactaaagacttcatatggtgctcataactgattgc-agGTGAGGGATGAGCTTGAACAACTTCTGGATGATGATGATGATATGGCTGATCTTTATCTGTCCAGAAAATTGGCTGGTGCATCTTCACCAGTTAGCGGCT

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|149107575|gb|EE189457.2|EE189457
EST:     TACGTAAGTTAAAAAGCGGGATGACAAGATTGACCGCAAGGGTTCAGAAG                         GTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGAT
genomic: TACGTAAGTTAAAAAGCGGGATGACAAGATTGACCGCAAGGGTTCAGAAGgtctggttcc ... tgtttgccagGTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGAT
EST: gi|26557372|gb|CA829607.1|CA829607
EST:     TACGTAAGTTAAAAAGCGGGATGACAAGATTGACCGCAAGGGTTCAGAAG                         GTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGA
genomic: TACGTAAGTTAAAAAGCGGGATGACAAGATTGACCGCAAGGGTTCAGAAGgtctggttcc ... tgtttgccagGTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGA
EST: gi|29544404|gb|CB604784.1|CB604784
EST:     TACGTAAGTTAAAAAGCGGGATGACAAGATTGACCGCAAGGGTTCAGAAG                         GTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGAT
genomic: TACGTAAGTTAAAAAGCGGGATGACAAGATTGACCGCAAGGGTTCAGAAGgtctggttcc ... tgtttgccagGTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGAT
EST: gi|76291165|gb|DV030733.1|DV030733
EST:     ATGACAAGATTGACCGCAAGGGTTCAGAAG                         GTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGAT
genomic: ATGACAAGATTGACCGCAAGGGTTCAGAAGgtctggttcc ... tgtttgccagGTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagcaccgtttctcttcgtggtttaggaatcacaaactgttctctgtttgccagGTGAGAGATGAGCTTGAACAATTATTGGATGACGACGATGACATGGCTGATCTTTATTTGTCTAGAAAGTTGGCTGGGGCATCTTCCCCTGTCAGTGGTT
                                        ttctctgttt  CT-rich tract