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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtcattttctgttatttgggcttcttttatgcttttcaaaccacagacagaccacctcaaaagctttttaattcgaattctagGGGTTGCCAGTTTTCAGAGACCCATTGTCACCAACAAATGTCAGCTTTGACGACTGCCACTTTGGAACGAAGTGTTTTCAACAAGTGACAAAAGTGAAGT

Basic information

species Zea mays
transcript GRMZM2G480074_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G480074_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os05g43810.1 (Oryza sativa), 3'ss of exon 4
gtagtcattttctgttatttgggcttcttttatgcttttcaaaccacagacagaccac-ctcaaaagctttttaattcgaattctagGGGTTGCCAGTTTTCAGAGACCCATTGTCACCAACAAATGTCAGCTTTGACGACTGCCACTTTGGAACGAAGTGTTTTCAACAAGTGACAAAAGTGAAGT
|||   |    || | |  ||   ||| | | || | |  ||||  |   || | ||  |||||| | ||  |  | | || | |||||  |||| |||| ||||||  |||| |||||||  |||||||||||||| |||||||||||||||||  |||||||||| |||||||| ||||| || |
gtaa--aagacctatcacatgctattcatgtctgatatgtaaacatc---catatcatactcaaatgtttagt--tcccaaatatagGGTATGCCGGTTTCCAGAGATACATTATCACCAAATAATGTCAGCTTTGATGACTGCCACTTTGGAACCCAGTGTTTTCAGCAAGTGACCAAAGTCAAAT

upper sequence: GRMZM2G480074_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S21_134V6.1 (Physcomitrella patens), 3'ss of exon 5
gtagtcattt--tctgttatttgggcttcttttatgcttttcaaaccacagacagaccacctcaaaagctttttaattcgaatt--ctagGGGTTGCCAG-------TTTTCAGAGACCCATTGTCACCAACAAATGTCAGCTTTGACGACTGCCACTTTGGAACGAAGTGTTTTCAACAAGTGACAAAAGTGAAGT---
  | ||  ||  | |||       |||  |     |       ||   |||       |          |   | |||  || |     | ||  | |||        | |     |  |||      | |    |||||||   ||||||||||||||||| ||||||||||| ||| |||| || ||  ||||||   
cgactcgcttgctttgtgtaacaagctgttgaaggggaacgataaattcaggggctttattatgttgtttgcctgattttaagtggtgggaggacggcagGGTGTGCCTGTGGTGAAATCATCACAGACCATGCGTGTCAGCCGCGACGACTGCCACTTTGGGACGAAGTGTTTCCAAGAAGTTACGAAGATGAAGTCCC
















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|60396336|gb|DN229205.1|DN229205
EST:     TCTTAGTATGTGCCTTAGACCATGAGACATATGAGTTCTCAATCTTACAG                         GGGTTGCCAGTTTTCAGAGACCCATTGTCACCAACAAATGTCAGCTTTGAC
genomic: TCTTAGTATGTGCCTTAGACCATGAGACATATGAGTTCTCAATCTTACAGgtagtcattt ... cgaattctagGGGTTGCCAGTTTTCAGAGACCCATTGTCACCAACAAATGTCAGCTTTGAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcttttcaaaccacagacagaccacctcaaaagctttttaattcgaattctagGGGTTGCCAGTTTTCAGAGACCCATTGTCACCAACAAATGTCAGCTTTGACGACTGCCACTTTGGAACGAAGTGTTTTCAACAAGTGACAAAAGTGAAGT
                                     ttttaat  putative branch site (score: 3)
                              aaaagctttttaatt  TA-rich tract