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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtatctttcagtcacatgacaatttcctttgtttcataatttgtgaatactgatgaatttgtctactaggacaaacaatattttcatttatccatgtaaattctaatttcagtggctcatcagttccacaaacacgtgtcatttggtttgcagGGCTATGGTTCCTTTCTCCTGCGAGATCTGCCATTTGATGCCATTCAATTTTGCATATATGAGCAACTCCGAATTGGTTATCGATTAACG

Basic information

species Zea mays
transcript GRMZM2G169914_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G169914_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os07g19460.1 (Oryza sativa), 3'ss of exon 7
gtatgtatctttcagtcacatgacaatttcctttgtttcataatttgtgaatactgatgaatttgtctactaggacaaacaatattttcatttatccatgtaaattctaatttcagtggctcatcagttccacaaacacgtgtcatttggtttgcagGGCTATGGTTCCTTTCTCCTGCGAGATCTGCCATTTGATGCCATTCAATTTTGCATATATGAGCAACTCCGAATTGGTTATCGATTAACG
                                                          | || | |||   ||   | || |||    || ||  | ||||   || |  |||     ||||| |   | |  |  |  |   |||||| |||  |||||||||||||||||||  |||||||||| ||||||||||| ||||| |||||||||||||||||||| ||||| || |||  | |  ||
----------------------------------------------------------gtatgtatctttgagtttatactatac---cacttccctatgt---ttatgtttt-----gctcagccaatgcttactcttgctacatttgatttttagGGCTATGGTTCCTTTCTGTTGCGAGATCTACCATTTGATGCTATTCAGTTTTGCATATATGAGCAACTTCGAATAGGCTATAAACTGGCG

upper sequence: GRMZM2G169914_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT4G39460.2 (Arabidopsis thaliana), 3'ss of exon 8
gtatgtatctttcagtcacatgacaatttcctttgtttcataatttgtgaatactgatgaatttgtctactaggacaaacaatattttcatttatccatgtaaattctaatttcagtggctcatcagttccacaaacacgtgtcatttggtttgcagGGCTATGGTTCCTTTCTCCTGCGAGATCTGCCATTTGATGCCATTCAATTTTGCATATATGAGCAACTCCGAATTGGTTATCGATTAACG
                                                                   || ||  ||    | ||  ||  | | |   | |  |||||   ||   ||  |  |||  |      ||   | |||||||  ||  |||| ||  | ||||| ||  |||||||| ||||||||||||| || || || |||||||||||||| ||  |  | || |||  |  | | 
-----------------------------------------------------------------gttagtaacactttta-tagctttttctttaagtctgcattct---tttgttgaattttca--tgtggtgacttatttcatttg-cttctagGGATACCGGTCCTTCCTTTTGCGAGATTTGCCATTTGATGCTATACAGTTCTGCATATATGAGCAGCTTTGCTTGGGGTATAAAAAAGCC
















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|5650195|gb|AI920555.1|AI920555
EST:     CTCAAGAAGGAATTAAAGGTCTTTATGCT                         GGCTATGGTTCCTTTCTACTGCGAGATTTGCCATTTGATGCCATTCAATTT
genomic: CTCAAGAAGGAATTAAAGGTCTTTATGCTgtatgtatct ... tggtttgcagGGCTATGGTTCCTTTCTCCTGCGAGATCTGCCATTTGATGCCATTCAATTT
EST: gi|60339440|gb|DN206413.1|DN206413
EST:     ATGCCGTTCGCCTTATCCTTGCTCAAGAAGGAATTAAAGGTCTTTATGCT                         GGCTATGGTTCCTTTCTCCTGCGAGATCTGCCATTTGATGCCATTCAATTT
genomic: ATGCCGTTCGCCTTATCCTTGCTCAAGAAGGAATTAAAGGTCTTTATGCTgtatgtatct ... tggtttgcagGGCTATGGTTCCTTTCTCCTGCGAGATCTGCCATTTGATGCCATTCAATTT
EST: gi|50325534|gb|CO520660.1|CO520660
EST:     GCTCAAGAAGGAATTAAAGGTCTTTATGCT                         GGCTATGGTTCCTTTCTCCTGCGAGATCTGCCATTTGATGCCATTCAATTT
genomic: GCTCAAGAAGGAATTAAAGGTCTTTATGCTgtatgtatct ... tggtttgcagGGCTATGGTTCCTTTCTCCTGCGAGATCTGCCATTTGATGCCATTCAATTT
EST: gi|88752899|gb|DY537040.1|DY537040
EST:     ATGCCGTTCGCCTTATCCTTGCTCAAGAAGGAATTAAAGGTCTTTATGCT                         GGCTATGGGTCCTTTCTCCTGCGAGATCTGCCATTTGATGCCATTCAATTT
genomic: ATGCCGTTCGCCTTATCCTTGCTCAAGAAGGAATTAAAGGTCTTTATGCTgtatgtatct ... tggtttgcagGGCTATGGTTCCTTTCTCCTGCGAGATCTGCCATTTGATGCCATTCAATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattctaatttcagtggctcatcagttccacaaacacgtgtcatttggtttgcagGGCTATGGTTCCTTTCTCCTGCGAGATCTGCCATTTGATGCCATTCAATTTTGCATATATGAGCAACTCCGAATTGGTTATCGATTAACG
  ttctaat  putative branch site (score: 2)
     taatttca  TA-rich tract