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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgatagccctgtcccccttcttttgttcaagtgtgttcaataaccaaatgtgaaactctggctagcccacaatgtaacaagagtataatttctgtgctttattatttgtttcattttttgtcttcagATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTCCAAAACCTCCTTGACAATATTTTTCTCCCTCTTTATGAAGTAACTGTTG

Basic information

species Zea mays
transcript GRMZM2G134396_T02
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134396_T03 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os07g49270.1 (Oryza sativa), 3'ss of exon 12
-------------------------------------gttgatagccctgtcccccttcttttgttcaagtgtgttcaataaccaaatgtgaaactctg------------gctagcccacaatgta-acaagagtataatttctgtgctttatta-------tttgtt------tcattt---tttgtcttcagATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTCCAAAACCTCCTTGACAATATTTTTCTCCCTCTTTATGAAGTAACTGTTG
                                       | |||    | ||    || ||||  | ||     |||| ||| ||| | | ||||| ||             ||||   ||  |||  |    | |||  | | | |  |||   |       |||  |      |  |||   ||| ||| |||||||||||||||||||||||||||||||||||||| ||||||||||||||||| ||||||||||||||||||||||| ||||||| ||||||||||||||
gttatgacactctctgttgatgtcgtcgtctgcttctagtcataattttatctgagttttttttctaaa---cattcagtaatcaattcttaaactttgtaaaccaaacaaactagtatactctgtgcaggtaactattttatttttattttgccagagtagatttactgaaacattgtttaattttatctgcagATTCCTCGGATATACAATGTATACAGGGAGATGGGAACAATCAATTCTTTCCAGAACCTCCTTGACAATATTTTTCTGCCTCTTTTTGAAGTAACTGTTG
















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|21987227|gb|BQ778755.1|BQ778755
EST:     GGATAGTGAACAATGAATTATATAGCGAGAATGTTGTCTGGTTAATTCAG                         ATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTC
genomic: GGATAGTGAACAATGAATTATATAGCGAGAATGTTGTTTGGTTAATTCAGgttgatagcc ... ttgtcttcagATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTC
EST: gi|26557914|gb|CA830149.1|CA830149
EST:     GATAG-GAACAATGAATTATATAGCGAGAATGTTGTCTTGGTTAATTCAG                         ATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTC
genomic: GATAGTGAACAATGAATTATATAGCGAGAATGTTGT-TTGGTTAATTCAGgttgatagcc ... ttgtcttcagATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTC
EST: gi|74237693|gb|DT645607.1|DT645607
EST:     GGATAGTGAACAATGAATTATATAGCGAGAATGTTGTTTGGTTAATTCAG                         ATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTC
genomic: GGATAGTGAACAATGAATTATATAGCGAGAATGTTGTTTGGTTAATTCAGgttgatagcc ... ttgtcttcagATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTC
EST: gi|71299098|gb|DR785546.1|DR785546
EST:     GGATAGTGAACAATGAATTATATAGCGAGAATGTTGTTTGGTTAATTCAG                         ATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTC
genomic: GGATAGTGAACAATGAATTATATAGCGAGAATGTTGTTTGGTTAATTCAGgttgatagcc ... ttgtcttcagATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTC
EST: gi|32835884|gb|CD975562.1|CD975562
EST:     GGATAGTGACCAATGAATTATATAGCGAGAATGTTGTTTGGTTAATTCAG                         ATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTC
genomic: GGATAGTGAACAATGAATTATATAGCGAGAATGTTGTTTGGTTAATTCAGgttgatagcc ... ttgtcttcagATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTC
EST: gi|32863100|gb|CF002782.1|CF002782
EST:     GGATAGTGAACAATGAATTATATAGCGAGAATGTTGTTTGGTTAATTCAG                         ATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTC
genomic: GGATAGTGAACAATGAATTATATAGCGAGAATGTTGTTTGGTTAATTCAGgttgatagcc ... ttgtcttcagATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtaacaagagtataatttctgtgctttattatttgtttcattttttgtcttcagATTCCTCGGATATACAATGTATACAGGGAGATGGGCACAATCAATTCTTTCCAAAACCTCCTTGACAATATTTTTCTCCCTCTTTATGAAGTAACTGTTG
 atgtaac  putative branch site (score: 3)
                                tttgtttcattttttg  putative PPT
                         tttattatttgtttca  TA-rich tract