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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttacatgatataatcaattttgttccagaattattatctcaagacatttgtttcagttcacatcatcacaaacattaacttcccacttgcccacctttagGTTTGGAGGCTGCAGGCAGCGTTGGGAGAACAATCTGAAATCACCAAGTGTACCAAACAGGAATATGAAAGGCTTCAAAAT

Basic information

species Zea mays
transcript GRMZM2G024690_T03
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G024690_T03 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os03g49900.1 (Oryza sativa), 3'ss of exon 11
gttacatgatataatca-attttgttccagaattattatctcaagacatttgtttcagttcacatcatcacaaacattaacttcccacttgcccacctttagGTTTGGAGGCTGCAGGCAGCGTTGGGAGAACAATCTGAAATCACCAAGTGTACCAAACAGGAATATGAAAGGCTTCAAAAT
|||||||  | |  |   ||||| ||   |  |   |   | | |  || ||       |   ||||| | | | | ||  |||| ||||     | || |||| |||||||| || ||||| |||||||| ||||| ||||| ||||| |||||||| ||||||| ||||||||||||||||
gttacattctctcttttcattttattattgtttaccttattaatgttatgtgcactctattttatcataatata-actattttcctacttattatctttcagGTATGGAGGCTCCAAGCAGCTTTGGGAGAGCAATCAGAAATTACCAAATGTACCAAGCAGGAATTTGAAAGGCTTCAAAAT
















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|20300032|gb|BQ162975.1|BQ162975
EST:     ATCCACCAGAAGTGGTTAGGAAAATGCCTAAAAAGGACCTTGCAGAAGAG                         GTTTGGAGGCTGCAGGCAGCGTTGGGAGAACAATCTGAAATCACCAAGTGT
genomic: ATCCACCAGAAGTGGTTAGGAAAATGCCTAAAAAGGACCTTGCAGAAGAGgttacatgat ... ccacctttagGTTTGGAGGCTGCAGGCAGCGTTGGGAGAACAATCTGAAATCACCAAGTGT
EST: gi|33098379|gb|CF058339.1|CF058339
EST:     ATCCACCAGAAGTGGTTAGGAAAATGCCTAAAAAGGACCTTGCAGAAGAG                         GTTTGGAGGCTGCAGGCAGCGTTGGGAGAACAATCTGAAATCACCAAGTGT
genomic: ATCCACCAGAAGTGGTTAGGAAAATGCCTAAAAAGGACCTTGCAGAAGAGgttacatgat ... ccacctttagGTTTGGAGGCTGCAGGCAGCGTTGGGAGAACAATCTGAAATCACCAAGTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttgtttcagttcacatcatcacaaacattaacttcccacttgcccacctttagGTTTGGAGGCTGCAGGCAGCGTTGGGAGAACAATCTGAAATCACCAAGTGTACCAAACAGGAATATGAAAGGCTTCAAAAT
                           cattaac  putative branch site (score: 2)
                                 cttcccacttgccc  CT-rich tract
                        aaacattaa  TA-rich tract