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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattcaaattatcttcaattggaactttcaaaagaggaaaaaactagctctttctgtttcactcattgcagtttttaatttacttgaatgtacagGAAAACTCTTGAAAGAAAAAGAACTTCCAGAAGAGGAGAAAAACTTTCAAAAGAATTATGTCAAGGCACCATCATTCCTTTCAATTCATATGGGTGTCAA

Basic information

species Zea mays
transcript GRMZM2G108457_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os11g36440.1 (Oryza sativa), 3'ss of exon 7
--------------------------------------------------------------------------gtaattcaaattatcttcaattggaactttcaaaagaggaaaaaact--agctctttctgtttcactcattgcagtttttaat-----------ttacttgaatgtacagGAAAACTCTTGAAAGAAAAAGAACTTCCAGAAGAGGAGAAAAACTTTCAAAAGAATTATGTCAAGGCACCATCATTCCTTTCAATTCATATGGGTGTCAA
                                                                          | || |   |  | |||   |   || |  |||   ||       ||  || | ||  |  || ||   ||| | || |  ||           ||||||  |   | ||| |||||||||||||   |||| ||||||||||||||||||||||| |||||||||||||| || ||||||||||||||||| |||||||||||||||||
gtaatcctgcttatctatttttatttgaaaaatatgcggctcgttgaaattcatttgttacaatattatttgctgaaagtttcacaacctttgctcaaaattcacaactcagttttgttcttgagttattatttgttaaccacttgtacttgtccataaaaataacaattacttctactcaaagGTAAACTCTTGAAAGTTGAAGAGCTTCCAGAAGAGGAGAAAAACTTCCAAAAGAATTATGTTAAAGCACCATCATTCCTTTCCATTCATATGGGTGTCAA

upper sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 7
-------------gtaattcaaattatcttcaattggaactttcaaaagaggaaaaaactagctctttctgtttcactcattgcagtttttaatt-tacttgaatgtac---agGAAAACTCTTGAAAGAAAAAGAACTTCCAGAAGAGGAGAAAAACTTTCAAAAGAATTATGTCAAGGCACCATCATTCCTTTCAATTCATATGGGTGTCAA
              | | | |  | |   || | | |     | || | |   || |  |  |   |  |||||   | | || | ||   | || || ||   ||| |   ||| || || || |||| | || | |||||  |||| ||  |||| || || ||    || |||||||| |||||||| ||||||||||| |||||||| ||
gtaagagaaaacaatgacttatgtaactgtcgaatagcttcctaaagaaaaagaatattttacaaatcttgttttg-taagtgtacttaaaacttgtattttgctgtgctttagGGAAGCTGTTAAAAGGAGAAAAGCTTCCTAAAGAAGAAGAAAATTTCCAGAAAGTGTACGTCAAGGCTCCATCATTTCTTTCAATTCACATGGGTGTTAA
















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|149086469|gb|EE176014.2|EE176014
EST:     GTTCTTTGCTAAAACGGTGATATCAAATGCCACTAGATGGGACACATTTG                         GAAAACTCTTGAAAGAAAAAGAACTTC-AGAAGAGGAGAAAAACTTTCAAA
genomic: GTTCTTTGCTAAAACGGTGATATCAAATGCCACTAGATGGGACACATTTGgtaattcaaa ... gaatgtacagGAAAACTCTTGAAAGAAAAAGAACTTCCAGAAGAGGAGAAAAACTTTCAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaactagctctttctgtttcactcattgcagtttttaatttacttgaatgtacagGAAAACTCTTGAAAGAAAAAGAACTTCCAGAAGAGGAGAAAAACTTTCAAAAGAATTATGTCAAGGCACCATCATTCCTTTCAATTCATATGGGTGTCAA
                                ttttaat  putative branch site (score: 3)
                               tttttaatttacttga  TA-rich tract