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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgatatacttagattgctctactaacttttgtatctccagatcttatgccttcataatgatgagaaactaactattgcctgacatatcactttgacagAAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACT

Basic information

species Zea mays
transcript GRMZM2G069198_T05
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G069198_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os06g46310.3 (Oryza sativa), 3'ss of exon 2
aatgatatacttagattgctctactaactttt-gtatctccagatcttatgc-cttcataatgatgagaaactaactattgcctgacatatcactttgacagAAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACT
|   |  || | |  ||| | | ||  |||||   || ||  ||| || | | |||||  ||||  |||||||||||| ||  ||  ||||    ||| |||||||| |||||||||||| |||| |||||||||||||| |||||||| ||||| ||||| ||||||||||||||||| |
accaacctagtcaatttgttatgctgtctttttaaatatcttgatatttttcacttcaggatga--agaaactaactactggttgttatatgctattggcagAAAAATAGTTGGAAGAACCTATTTTCATACATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATT

upper sequence: GRMZM2G069198_T04 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G23320.1 (Glycine max), 3'ss of exon 2
aatgatatacttagattgctctactaacttttgtatctccagatcttatgccttcataatgatgagaaactaactattgcctg---acatatcactttgacagAAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACT
  | |  |  || ||||||       ||||  ||| |||    || |   | |  |      | |   | || | ||    |    |  | |   |||  |||| ||  || ||||| ||||||||  ||||||| |||||||||||||| || || ||||||||||| || || |||||||
--tta-gtgatttgattgcaaagtatacttccgtaactcacattcattgccatagactgaagttaaccaatatccatcatatatgtatgtttgtattttgcagAGAACAAGCTGGAAAAACTTATTTGCATACATTGGGCCTGGATTTCTTGTTTCCATTGCATATATCGACCCAGGAAACT

upper sequence: GRMZM2G069198_T04 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA15G00590.1 (Glycine max), 3'ss of exon 1
-----aatgatatacttagattgctctactaacttttgtatctccagatcttatgccttcataatgatgagaaactaactattgcctgacatatcactttgacagAAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACT
      ||  || | | | | |||  || || | | |   ||  | |||  |  |  ||  | |   ||| || |  || |||   | |    ||  |||  ||||  |  || ||||| || |||||  ||||||| |||||||| ||||| || || ||||||||||| ||||| |||||||
ccttcgattgtagagt-acactgcagtaata-catatacttcctctgatgatgagtattgtttact-tgataacc--accatttatttatgcttctattttgcagAGGAGAAGCTGGAAAAATTTATTTGCATACATGGGGCCTGGGTTTCTTGTTTCCATTGCATATATAGATCCAGGAAACT

upper sequence: GRMZM2G069198_T04 (Zea mays), 3'ss of exon 2
lower sequence: AT1G80830.1 (Arabidopsis thaliana), 3'ss of exon 1
-----aatgatatacttagattgctctactaacttttgtatctccagatcttatgccttcataatgatgagaaactaactattgcctgacatatcactttgacagAAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACT
            |    | ||      |||||       |     |||   |        | |||||| |  |  |   |      |||   ||||  ||  ||||| || || |||||||| || ||  | ||| |||| ||||| ||||| || ||||| ||||||||||||||||||||||
tcgttttcagagtcaacatatcagaagactaaacaaaaaacacagagaatcttgattcaaaaaatgataatgagtttgtt-----ttgaatcatcaactttgcagAAGAAGAGCTGGAAGAATTTCTTTGCTTACTTAGGCCCTGGTTTTCTTGTTTCAATCGCATATATTGATCCTGGAAACT

upper sequence: GRMZM2G069198_T04 (Zea mays), 3'ss of exon 2
lower sequence: AT1G15960.1 (Arabidopsis thaliana), 3'ss of exon 1
aatgatatacttag--attgctctactaacttttgtatctccagatcttatgccttcataatgatgagaaactaactattgcctgacatat-cactttgacagAAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACT
    ||  | ||    | |||   |     |  |  |  ||   |    | |  |   |     |       |   | ||   ||  |||| ||      |||||||| || ||||| ||||| ||||||||| |||| ||||||||||| ||||||||||| || ||||||||||||||||
---catgaatttgattactgcctaaagggttgatagacttcataagtacaagagtgtttttgacttgtggttttgatgtttgttgctatatacataactgcagAAAAAGAGCTGGAAAAACTTCTTCTCATACTTAGGCCCTGGATTTCTTGTCTCAATTGCTTACATTGATCCTGGAAACT

upper sequence: GRMZM2G069198_T04 (Zea mays), 3'ss of exon 2
lower sequence: Vv09s0070g00210.t01 (Vitis vinifera), 3'ss of exon 2
aatgatatactt-agattgctctactaacttttgtatctccagatcttatgccttcataatgatgagaaactaact-attgcctgacatatcactttg-acagAAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACT
   | | ||||  ||  |   ||   |   |   |      |       |   | | | |||   | |   | | | || |||| | ||      | |  ||||  || || ||||| ||||||||  |||| || || ||||| ||||| || || ||||||||||||||||||||||| |
---ggtttactccaggctatgctgtcataatacatgctggaactgagattagttactttatgtgaataccttgattgatggccttaaatgatttatcgtgcagAGGAAAAGCTGGAAAAACTTATTTGCATATATGGGTCCTGGGTTTCTTGTGTCTATTGCATATATTGATCCTGGAAATT

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|211049303|gb|FL092984.1|FL092984
EST:     GCACTCCTCTTATCGAAAGCATAGATGTTGATCAAATTGTTATTCCAGAG                         AAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTC
genomic: GCACTCCTCTTATCGAAAGCATAGATGTTGATCAAATTGTTATTCCAGAGgtatgctata ... actttgacagAAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatgccttcataatgatgagaaactaactattgcctgacatatcactttgacagAAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACT
                                           tcacttt  CT-rich tract
       ttcataat  TA-rich tract