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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgtggatactgctccacaggatggtacataatactcctgttgcattttatcctgtttctgaagaagtgcttgttcatattgtccttattatcttttcaGGGTATTGATAGACAAGATGTCCGTATTGTTTGCCACTTCAACTTGCCTAAGTCAATGGAATCCTTCTACCAGGAGTCAGGTCGAGCTGGTCGTGATCAA

Basic information

species Zea mays
transcript GRMZM2G039683_T02
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G039683_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os02g54020.1 (Oryza sativa), 3'ss of exon 12
tttgtggatactgctccacaggatggtacataatactc-ctgttgcattttatcctgt--ttctgaagaagtgctt-gttcata---ttgtccttattatcttttcaGGGTATTGATAGACAAGATGTCCGTATTGTTTGCCACTTCAACTTGCCTAAGTCAATGGAATCCTTCTACCAGGAGTCAGGTCGAGCTGGTCGTGATCAA-
                         |||  | |||||   ||||   ||||   | ||  |||||||||||||||| | | |||   | |   ||||| | |||||||||||||||||||||||||||||||||||| || ||||  |||||||||||||| |||||| ||||||||||||||||||| |||||||| ||||| ||| 
-------------------------gtatgttatactaattgttttttttttgtcagtctttctgaagaagtgctttgctaatacattgggttttatttttttttcagGGTATTGATAGACAAGATGTCCGTATTGTGTGTCACTATAACTTGCCTAAGTCCATGGAAGCCTTCTACCAGGAGTCAGGACGAGCTGGCCGTGACCAAC

upper sequence: GRMZM2G039683_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA09G08180.1 (Glycine max), 3'ss of exon 11
----tttgtggatactg-ctccacaggatggtacataatactcctgttgcattttatcctgt----ttctgaagaagtgc-----ttgttcatattgtcctta---ttatcttttcaGGGTATTGATAGACAAGATGTCCGTATTGTTTGCCACTTCAACTTGCCTAAGTCAATGGAATCCTTCTACCAGGAGTCAGGTCGAGCTGGTCGTGATCAA-
     |  |  ||  ||  |    |  |   |   ||| | | ||||    ||||| | | |    |  | |  |    |     ||| |  || |  | | |     |  |   ||||| ||||||||| | |||||| | ||||| |||||||||||| | || |||||||||||| | ||||| || ||||||||  ||||||||||||||||| 
gtacgtactacatggtgattttgtattagcttgactaaaatttctgtgatgttttaacatttgtaatcttcattatactcgtgaattgctggtaataacttgagaccaaattaaccagGGCATTGATAGAAAGGATGTCAGAATTGTATGCCACTTCAACATTCCCAAGTCAATGGAAGCATTCTATCAAGAGTCAGGCAGAGCTGGTCGTGATCAAT

upper sequence: GRMZM2G039683_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv11s0016g00850.t01 (Vitis vinifera), 3'ss of exon 10
-tttgtggatactgctccacaggatggtacataatactcctgttgcattttatcctgtt-tctgaagaagtgcttgttcatattgtccttattatcttttcaGGGTATTGATAGACAAGATGTCCGTATTGTTTGCCACTTCAACTTGCCTAAGTCAATGGAATCCTTCTACCAGGAGTCAGGTCGAGCTGGTCGTGATCAA-
  ||      | |     | ||  |  ||  | |   ||  |  | || ||||   |   | |||     |   |       |  |   ||  | ||||| |||| || || ||| | |||||| | || ||||||||||||||  | || |||||||||||| | ||||| || ||||||||| |||||||||| |||||| 
aatttcaacaagtttgggatagtttattatttcaagttctgg--ggatgttattaagccatatgatatgttaaattaatggctgatggataaaaactttt-agGGCATAGACAGAAAGGATGTCAGAATCGTTTGCCACTTCAATATTCCAAAGTCAATGGAAGCATTCTATCAAGAGTCAGGTAGAGCTGGTCGAGATCAAT

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|60399085|gb|DN231899.1|DN231899
EST:     TGGCTTTCATCGAGAACTCAAGTTGTTGTTGCAACTGTAGCATTTGGG-A                         T
genomic: TGGCTTTCATCGAGAACTCAAGTTGTTGTTGCAACTGTAGCATTTGGGTAttacttctct ... tatcttttca-
EST: gi|60399085|gb|DN231899.1|DN231899
EST:     TGGCTTTCATCGAGAACTCAAGTTGTTGTTGCAACTGTAGCATTTGGG-A                         T
genomic: TGGCTTTCATCGAGAACTCAAGTTGTTGTTGCAACTGTAGCATTTGGGTAttacttctct ... tatcttttca-
EST: gi|60350164|gb|DN217137.1|DN217137
EST:     TGGCTTTCATCGAGAACTCAAGTTGTTGTTGCAACTGTAGCATTTGGG-A                         T
genomic: TGGCTTTCATCGAGAACTCAAGTTGTTGTTGCAACTGTAGCATTTGGGTAttacttctct ... tatcttttca-
EST: gi|60350164|gb|DN217137.1|DN217137
EST:     TGGCTTTCATCGAGAACTCAAGTTGTTGTTGCAACTGTAGCATTTGGG-A                         T
genomic: TGGCTTTCATCGAGAACTCAAGTTGTTGTTGCAACTGTAGCATTTGGGTAttacttctct ... tatcttttca-
EST: gi|89761057|gb|DY689223.1|DY689223
EST:     GGCTTTCATCGAGAACTCAAGTTGTTGTTGCAACTGTAGCATTTGGGAT-                         GGGTATTGATAGACAAGATGTCCGTATTGTTTGCCACTTCAACTTGCCTA
genomic: GGCTTTCATCGAGAACTCAAGTTGTTGTTGCAACTGTAGCATTTGGG-TAttacttctct ... tatcttttcaGGGTATTGATAGACAAGATGTCCGTATTGTTTGCCACTTCAACTTGCCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttatcctgtttctgaagaagtgcttgttcatattgtccttattatcttttcaGGGTATTGATAGACAAGATGTCCGTATTGTTTGCCACTTCAACTTGCCTAAGTCAATGGAATCCTTCTACCAGGAGTCAGGTCGAGCTGGTCGTGATCAA
                                      tccttattatcttttc  CT-rich tract
                                         ttattatcttttca  TA-rich tract