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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtttttttttctttgcattacgtacggcaactaatataattattatgataactagctagcacaagtagtcaaaattaaggggctaaatttcttgagcagGAGTTACTACAGGTGCACCAACAGCAAATGCACAGTGAAGAAGCGCGTGGAGAGGTCCTCCGACGACCCCTCCGTGGTCATCACCACCTACGAGGGCCAG

Basic information

species Zea mays
transcript GRMZM2G143204_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G143204_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g55080.1 (Oryza sativa), 3'ss of exon 2
agtttttttttctttgcattacgtacggcaactaatataattatt--atgataactagct---agcacaagtagtca----aaattaaggggctaaatttcttgag-cagGAGTTACTACAGGTGCACCAACAGCAAATGCACAGTGAAGAAGCGCGTGGAGAGGTCCTCCGACGACCCCTCCGTGGTCATCACCACCTACGAGGGCCAG
                ||  ||   |   || |   || ||||||  |     | | | |    || ||| || |||    | |  ||         || |||||  |||||| ||||||||||||||||||||||| ||||| |||||||||||||||||| |||| ||||||||||| ||||| || |||||||||||||||||||||
----------aagacacaccaccatccataattgccatcattattaaacatggatttgttcaaggctcaactaatcatcacataacaaaaaatggttttgcttgactcagGAGCTACTACAGGTGCACCAACAGCAAGTGCACTGTGAAGAAGCGCGTGGAGCGGTCTTCCGACGACCCTTCCGTCGTGATCACCACCTACGAGGGCCAG

upper sequence: GRMZM2G143204_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA01G06870.4 (Glycine max), 3'ss of exon 2
agtttttttttctttgcattacgtacggcaactaatataattattatgataac-tagctagcacaagtagtcaaaattaaggggctaaatttcttgagcagGAGTTACTACAGGTGCACCAACAGCAAATGCACAGTGAAGAAGCGCGTGGAGAGGTCCTCCGACGACCCCTCCGTGGTCATCACCACCTACGAGGGCCAG
||   || |  |||   |     ||    ||||   |  ||||   |||   |  | |    | || || | |   | | |    ||  | | ||  ||||||| |||||| ||||||| |||||||||||||| ||||||||| | || ||  | || ||||| |||||  |  | || || || || || || || || 
agaacttatgacttcatacatattattcaaactctcaccattaaattgacttcacaacattgataattaattattctgatgcaattatgtcttttt-gcagGAGCTACTACCGGTGCACAAACAGCAAATGCACGGTGAAGAAGAGGGTTGAACGCTCTTCCGAGGACCCAACGATTGTGATTACTACATATGAAGGGCAA

upper sequence: GRMZM2G143204_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA02G12830.1 (Glycine max), 3'ss of exon 2
-agtttttttttctttgcattacgtacggcaactaatataattattatgataactagctagcacaagtagtcaaaattaaggggctaaatttcttgagcagGAGTTACTACAGGTGCACCAACAGCAAATGCACAGTGAAGAAGCGCGTGGAGAGGTCCTCCGACGACCCCTCCGTGGTCATCACCACCTACGAGGGCCAG
 |   |        |   |||| | || |  |   | |   | |  |  | |   |  |  ||  | |    | ||||||        ||   ||  ||||||| |||||| ||||||| |||||||||||||| ||||||||| | || ||  |||| ||||| |||||  |  | || || ||||| || || || || 
tataatgaccacactaatatta-gaactgttatccaaaccctcaccactaaattgacttcacaacattgcagataattaattattctgatacattttgcagGAGCTACTACCGGTGCACAAACAGCAAATGCACGGTGAAGAAGAGGGTTGAACGGTCTTCCGAGGACCCAACAATTGTGATTACCACATATGAAGGGCAA

upper sequence: GRMZM2G143204_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv01s0011g00720.t01 (Vitis vinifera), 3'ss of exon 2
-agtttttttttctttgcattacgtacggcaactaatataattattatgataactagctagcacaagtagtcaaaattaaggggctaaatttcttgagcagGAGTTACTACAGGTGCACCAACAGCAAATGCACAGTGAAGAAGCGCGTGGAGAGGTCCTCCGACGACCCCTCCGTGGTCATCACCACCTACGAGGGCCAG
  | | | ||   || | |  |  |   |  |   |  ||  ||  | ||||| | |       |   |   || |||||     |  |    ||  ||||||| || ||| ||||||| |||||||||||||| ||||||||  | || ||  | ||||| || || |||  | | || ||||| || || || ||||| 
gggatctcttgggttggaaaaaaatcttgttagctagttatatagca-gataaattggatttgtattgaaaaaagattaattttattcacacattttgcagGAGCTATTACCGGTGCACAAACAGCAAATGCACGGTGAAGAAAAGAGTTGAACGCTCCTCGGAGGATCCCAGCATCGTAATCACTACATATGAAGGCCAA

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|71428707|gb|DR809757.1|DR809757
EST:     AGATGGAGGAAGTATGGCCAGAAAGCTGTCAAGAACAGCCCTTTCCCAAG                         GAGTTACTACAGGTGCACCAACAGCAAATGCACAGTGAAGAAGCGCGTGGA
genomic: AGATGGAGGAAGTATGGCCAGAAAGCTGTCAAGAACAGCCCTTTCCCAAGgttggttcca ... tcttgagcagGAGTTACTACAGGTGCACCAACAGCAAATGCACAGTGAAGAAGCGCGTGGA
EST: gi|76913751|gb|DV165250.1|DV165250
EST:     AGATGGAGGAAGTATGGCCAGAAAGCTGTCAAGAACAGCCCTTTCCCAAG                         GAGTTACTACAGGTGCACCAACAGCAAATGCACAGTGAAGAAGCGCGTGGA
genomic: AGATGGAGGAAGTATGGCCAGAAAGCTGTCAAGAACAGCCCTTTCCCAAGgttggttcca ... tcttgagcagGAGTTACTACAGGTGCACCAACAGCAAATGCACAGTGAAGAAGCGCGTGGA
EST: gi|101386129|gb|EB815105.1|EB815105
EST:     AGATGGAGGAAGTATGGCCAGAAAGCTGTCAAGAACAGCCCTTTCCCAAG                         G--T-------G---CACCAACAGCAAATGCACAGTGAAGAAGCGCGTGGA
genomic: AGATGGAGGAAGTATGGCCAGAAAGCTGTCAAGAACAGCCCTTTCCCAAGgttggttcca ... tcttgagcagGAGTTACTACAGGTGCACCAACAGCAAATGCACAGTGAAGAAGCGCGTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgataactagctagcacaagtagtcaaaattaaggggctaaatttcttgagcagGAGTTACTACAGGTGCACCAACAGCAAATGCACAGTGAAGAAGCGCGTGGAGAGGTCCTCCGACGACCCCTCCGTGGTCATCACCACCTACGAGGGCCAG
                                           tttctt  CT-rich tract
                        tcaaaattaa  TA-rich tract