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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catttacgtgatggaagtttagatccgttgtttctaattccaaatatctgccagtaccatgtttctaacctatctatttcccttcatcttttgtggctagACATGTGGAAAGTGGCGTCCAGATGAATCACAGAGACCTGAAATCGATGATGCTCCCGTTTTCGCTCCGACAGAAGAG

Basic information

species Zea mays
transcript GRMZM2G108589_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G108589_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g23670.1 (Oryza sativa), 3'ss of exon 2
--------------catttacgtgatggaagtttagatccgttgtttctaat--tccaaatatctgccagtaccatgtttctaacctatc----tatttcccttcatcttttgtggctagACATGTGGAAAGTGGCGTCCAGATGAATCACAGAGACCTGAAATCGATGATGCTCCCGTTTTCGCTCCGACAGAAGAG
                |||   |  |   || | |     ||  |||||| |  || | |  | |   | ||     |   |||  | ||    |||||    | | ||||| ||   |||||  ||||||||||| |||| |||||||  | ||||||||||| |||||||| || |||||| |||| || ||||||
gtaattccttgaaaagttttgattttattagctgaatgttgtcatttctattcctctacagctttattattattggctaattaatttttcatgctattttatctta-cttttatgaacagACAAATGGAAAGTGGCATCCACATGAATCGTACAGACCTGAAATTGATGATGCCCCTGTTTTCACTCCAACGGAAGAG
















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|211286620|gb|FK972435.1|FK972435
EST:     CGGTGGCCTCGCCGGGGCCCAGCGCCGTG---G---C-GTGGCCTCGCAG                         ACATGTGGAAAGTGGCGTCCAGATGAATCACAGAGACCTGAAATCGATGAT
genomic: CGGTGGCCTCGCCGGGGCCCAGCGCCGTGACCGTGGCCGTGGCCTCGCAGgtacggctca ... ttgtggctagACATGTGGAAAGTGGCGTCCAGATGAATCACAGAGACCTGAAATCGATGAT
EST: gi|76286850|gb|DV026418.1|DV026418
EST:     CGGTGGCCTCGCCGGGGCCCAGCGCCGTGACCGTGGCCGTGGCCTCGCAG                         ACATGTGGAAAGTGGCGTCCAGATGAATCACAGAGACCTGAAATCGATGAT
genomic: CGGTGGCCTCGCCGGGGCCCAGCGCCGTGACCGTGGCCGTGGCCTCGCAGgtacggctca ... ttgtggctagACATGTGGAAAGTGGCGTCCAGATGAATCACAGAGACCTGAAATCGATGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctgccagtaccatgtttctaacctatctatttcccttcatcttttgtggctagACATGTGGAAAGTGGCGTCCAGATGAATCACAGAGACCTGAAATCGATGATGCTCCCGTTTTCGCTCCGACAGAAGAG
                 ttctaac  putative branch site (score: 1)
                       cctatctatttccctt  CT-rich tract
                         tatctattt  TA-rich tract