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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatgcacccagctttgttatttgagcatatttatatattggactgctctgttggaacgaattttctacactctgaacttctgaagcatacagaatattttgtatatccatttgacaattatgttctgattgatagATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAAAATTATATACCACCACCAGCACCACCATCTTATGATGAAATTAATGGAG

Basic information

species Zea mays
transcript GRMZM2G104166_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G104166_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os04g45670.1 (Oryza sativa), 3'ss of exon 7
gtatgtatgcacccagctttgttatttgagcatatttatatattggactgctctgttggaacgaattttctacactctgaacttctgaagcatacagaa-tattttgtatatccatttgacaattatgttctgattga--tagATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAAAATTATATACCACCACCAGCACCACCATCTTATGATGAAATTAATGGAG---
|||||||| |  |||||  | ||        | |||| | |       ||  ||||||  ||       | |||| |||      | |||  | ||||| |  | | |  ||| | || |  ||||| || ||||||   |||||||| || ||||| ||||| ||||||||||| ||||| ||| |||| |||||||| ||  |||  |||   |||||||||||||| ||| | |||||     
gtatgtatac-tccagcactatt-------tacattttttttaaaacatggcctgttgacacag----cccacacactg------tcaagtgtgcagaagtcctatcttcatcaagttaatgattattttttgattggtttagATGGTATCAGAGCGTCAAAAGATTGAAGCACCTCCGACCCCATCAGCAGAAAATTACATGGCACAGCCA---CCACCATCTTATGACGAAGTCAATGGCATGT
















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|211163115|gb|FL067004.1|FL067004
EST:     GAACTTACCATCAGAGAGTTCTGGAGATACTTGACAAATTGGAAGAATAA                         ATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAA
genomic: GAACTTACCATCAGAGAGTTCTGGAGATACTTGACAAATTGGAAGAAGAAgtatgtatgc ... tgattgatagATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAA
EST: gi|5847057|gb|AW000136.1|AW000136
EST:     GAACTTACCATCAGAGAGTTCTGGAGATACTTGACAAATTGGAAGAAGAA                         ATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAA
genomic: GAACTTACCATCAGAGAGTTCTGGAGATACTTGACAAATTGGAAGAAGAAgtatgtatgc ... tgattgatagATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAA
EST: gi|6095746|gb|AW120413.1|AW120413
EST:     AACTTACCATCAGAGAGTTCTGGAGAATACTTGACAAATTGGAAGAAGAA                         ATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAA
genomic: AACTTACCATCAGAGAGTTCTGGAG-ATACTTGACAAATTGGAAGAAGAAgtatgtatgc ... tgattgatagATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAA
EST: gi|211163114|gb|FL067003.1|FL067003
EST:     GAACTTACCATCAGAGAGTTCTGGAGATACTTGACAAATTGGAAGAAGAA                         ATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAA
genomic: GAACTTACCATCAGAGAGTTCTGGAGATACTTGACAAATTGGAAGAAGAAgtatgtatgc ... tgattgatagATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAA
EST: gi|5915494|gb|AW053135.1|AW053135
EST:     GAACTTACCATCAGAGAGTTCTGGAGATACTTGACAAATTGGAAGAAGAA                         ATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAA
genomic: GAACTTACCATCAGAGAGTTCTGGAGATACTTGACAAATTGGAAGAAGAAgtatgtatgc ... tgattgatagATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAA
EST: gi|5895761|gb|AW037007.1|AW037007
EST:     GAACTTACCATCAGAGAGTTCTGGAGATACTTGACAAATTGGAAGAAGAA                         ATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAA
genomic: GAACTTACCATCAGAGAGTTCTGGAGATACTTGACAAATTGGAAGAAGAAgtatgtatgc ... tgattgatagATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAA
EST: gi|211163116|gb|FL067005.1|FL067005
EST:     GAACTTACCATCAGAGAGTTCTGGAGATACTTGACAAATTGGAAGAAGAA                         ATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAA
genomic: GAACTTACCATCAGAGAGTTCTGGAGATACTTGACAAATTGGAAGAAGAAgtatgtatgc ... tgattgatagATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaagcatacagaatattttgtatatccatttgacaattatgttctgattgatagATGGTGTCTGAGCGCCAAAAAATTGAAGCACCCCCGACTCCAGCAGCTGAAAATTATATACCACCACCAGCACCACCATCTTATGATGAAATTAATGGAG
                                          ttctgat  putative branch site (score: 3)
          agaatattttgtatat  TA-rich tract