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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcaaccatactctacttgcaatttattattcatattgtttattaccatagataaataagttgtccctcacacgactatcccgcatcaatttggcagGATTTGCTGGTTATTTTGACTCTGTACTTTATAAAGATGTTCATCTTGGAATCGAGCCAAACACAGCTACACCAAACATGTTTAGCTG

Basic information

species Zea mays
transcript GRMZM2G169927_T01
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G169927_T03 (Zea mays), 3'ss of exon 19
lower sequence: LOC_Os02g04660.2 (Oryza sativa), 3'ss of exon 14
gtatgcaaccat---actctacttgcaatt-tattattc-atattgtt---tattaccatagataaata-agttgtccctcacacgactatcccgcatcaatttggcagGATTTGCTGGTTATTTTGACTCTGTACTTTATAAAGATGTTCATCTTGGAATCGAGCCAAACACAGCTACACCAAACATGTTTAGCTG
||||| | | ||     | ||||||  ||| || | | | || ||      ||  | |||  ||| ||   |  |    | || | |||    | ||||| |||||||||||||||||| ||||||||  | ||| | ||||||||||||||||||||||| || |||||||| |||||||||||||||||||||||
gtatgtagctattgagttatacttgtgattatactttgctatgttacaaggtagaaacatctatatatttggcagaatttgactctactcattcccatcattttggcagGATTTGCTGGATATTTTGATGCCGTATTGTATAAAGATGTTCATCTTGGAATTGAACCAAACACGGCTACACCAAACATGTTTAGCTG

upper sequence: GRMZM2G169927_T03 (Zea mays), 3'ss of exon 19
lower sequence: AT4G31120.1 (Arabidopsis thaliana), 3'ss of exon 20
gtatgcaaccatactctacttgcaatttattattcat-attgtttattac-catagataaataagttgtccctcacacgactatcccgcatcaatttggcagGATTTGCTGGTTATTTTGACTCTGTACTTTATAAAGATGTTCATCTTGGAATCGAGCCAAACACAGCTACACCAAACATGTTTAGCTG
    | | |     | | || ||  ||| || ||  | | |||  |||   |||    |  |  ||  ||    ||  || | | | ||   |   |   |||||| ||||| |||||||| || || ||||||||||||||||||||||| |||||||| |  ||||| |||||||||||||| |||||
----gtacctgcttttttctagcccttttttgtttgttaatgtcaattttacatctccatttccgtaatctgaaac-tgaatctactgcg--atcataatagGATTCGCTGGCTATTTTGATTCCGTCCTTTATAAAGATGTTCATCTTGGGATCGAGCCTACAACAGCAACACCAAACATGTTCAGCTG

upper sequence: GRMZM2G169927_T03 (Zea mays), 3'ss of exon 19
lower sequence: AT4G31120.2 (Arabidopsis thaliana), 3'ss of exon 20
gtatgcaaccatactctacttgcaatttattattcat-attgtttattac-catagataaataagttgtccctcacacgactatcccgcatcaatttggcagGATTTGCTGGTTATTTTGACTCTGTACTTTATAAAGATGTTCATCTTGGAATCGAGCCAAACACAGCTACACCAAACATGTTTAGCTG------------
    | | |     | | || ||  ||| || ||  | | |||  |||   |||    |  |  ||  ||    ||  || | | | ||   |   |   |||||| ||||| |||||||| || || ||||||||||||||||||||||| |||||||| |  ||||| |||||||||||||| |||||            
----gtacctgcttttttctagcccttttttgtttgttaatgtcaattttacatctccatttccgtaatctgaaac-tgaatctactgcg--atcataatagGATTCGCTGGCTATTTTGATTCCGTCCTTTATAAAGATGTTCATCTTGGGATCGAGCCTACAACAGCAACACCAAACATGTTCAGCTGGTAATGGATTAA

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|211483572|gb|FL225317.1|FL225317
EST:     CAAGTTGCAATTTGAAATGCTGCCAGATATGGGTTCATGCCTTGTGCATG                         GATTTGCTGGTTATTTTGACTCTGTACTTTATAAAGATGTTCATCTTGGAA
genomic: CAAGTTGCAATTTGAAATGCTGCCAGATATGGGTTCATGCCTTGTGCATGgtatgcaacc ... aatttggcagGATTTGCTGGTTATTTTGACTCTGTACTTTATAAAGATGTTCATCTTGGAA
EST: gi|211483570|gb|FL225315.1|FL225315
EST:     CAAGTTGCAATTTGAAATGCTGCCAGATATGGGTTCATGCCTTGTGCATG                         GATTTGCTGGTTATTTTGACTCTGTACTTTATAAAGATGTTCATCTTGGAA
genomic: CAAGTTGCAATTTGAAATGCTGCCAGATATGGGTTCATGCCTTGTGCATGgtatgcaacc ... aatttggcagGATTTGCTGGTTATTTTGACTCTGTACTTTATAAAGATGTTCATCTTGGAA
EST: gi|5816272|gb|AI987188.1|AI987188
EST:     CAAGTTGCAATTTGAAATGCTGCCAGATATGGGTTCATGCCTTGTGCATG                         GATTTGCTGGCTATTTTGACTCTGTACTTTATAAAGATGTTCATCTTGGAA
genomic: CAAGTTGCAATTTGAAATGCTGCCAGATATGGGTTCATGCCTTGTGCATGgtatgcaacc ... aatttggcagGATTTGCTGGTTATTTTGACTCTGTACTTTATAAAGATGTTCATCTTGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaccatagataaataagttgtccctcacacgactatcccgcatcaatttggcagGATTTGCTGGTTATTTTGACTCTGTACTTTATAAAGATGTTCATCTTGGAATCGAGCCAAACACAGCTACACCAAACATGTTTAGCTG
                      ccctcac  putative branch site (score: 3)
     atagataaataagtt  TA-rich tract