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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtactactggttctctctgcctatgctatgccgaacccgttcgtggctctcagtcgttttctggacagtacgtggagagaccggccaaaaactatactcactgcgatttgcaaacgtctctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACAAGATTGCCGTTCATTTCCACGATACGTACGGGCAGGCCCTTGCCAACAT

Basic information

species Zea mays
transcript GRMZM2G095141_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G095141_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os12g04020.1 (Oryza sativa), 3'ss of exon 7
gtgtactactggttctctctgcctatgctatgccgaacccgttcgtggctctcagtcgttttctggacagtacgtggagagaccggccaaaaactatactcactgcgatttgcaaacgtctctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACAAGATTGCCGTTCATTTCCACGATACGTACGGGCAGGCCCTTGCCAACAT
                         |||||  |   |   | |      | |  |   ||||||  |   ||    |||  ||    ||      ||  |  ||||   |||  | | | | ||  |||||||||||  ||||||||||| ||||||| ||||| ||||| || ||||||||||| ||||| |||||||| || || ||||| || ||||||||||||||
-------------------------tgctaatc---atgtgatttcaattgttcgaacttttctacatgatagtatgagccacttctcattgggaat--ttcctgctccttgttatcttatttgtttcagGTAGCGTACTTGCTATGCTTGAAGCTGTAATGTCTTTTGTTCCAGTGGACAAGATCGCCGTCCATTTCCATGACACATACGGCCAAGCCCTTGCCAACAT

upper sequence: GRMZM2G095141_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os11g04210.2 (Oryza sativa), 3'ss of exon 6
gtgtactactggttctctctgcctatgctatgccgaacccgttcgtggctctcagtcgttttctggacagtacgtggagagaccggccaaaaactatactcactgcgatttgcaaacgtctctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACAAGATTGCCGTTCATTTCCACGATACGTACGGGCAGGCCCTTGCCAACAT
                         |||||  |  |     |   | | ||  | |  | |    ||||||| |  |  | |     ||    | ||  ||    || | |       | | ||  ||||||||| |  ||||||||||| ||||||| ||||| ||||| || ||||||||| | ||||| ||||| || || || ||||| || ||||||||||||||
-------------------------tgctaatcatataatttcaattgttcgaatttttctatatgacagtatg-agccacatatctcattggcaattttc----cgctctcttgtattgtttgtttcagGTAGCATACTTGCTATGCTTGAAGCTGTAATGTCTTTTGTTCCAGTGGACAAGCTCGCCGTCCATTTTCATGACACATACGGCCAAGCCCTTGCCAACAT
















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|5761976|gb|AI967024.1|AI967024
EST:     TGGTGTCGGGACACCAG                         GTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
genomic: TGGTGTCGGGACACCAGgtgtactact ... tctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
EST: gi|211227159|gb|FL464265.1|FL464265
EST:     GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAG                         GTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
genomic: GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAGgtgtactact ... tctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
EST: gi|71301050|gb|DR786554.1|DR786554
EST:     GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAG                         GTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
genomic: GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAGgtgtactact ... tctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
EST: gi|211088485|gb|FL432076.1|FL432076
EST:     GAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAG                         GTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
genomic: GAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAGgtgtactact ... tctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
EST: gi|149072591|gb|EE157105.2|EE157105
EST:     GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAG                         GTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
genomic: GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAGgtgtactact ... tctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
EST: gi|91872712|gb|EB402669.1|EB402669
EST:     GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAG                         GTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
genomic: GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAGgtgtactact ... tctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
EST: gi|110950579|gb|EE170731.1|EE170731
EST:     GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAG                         GTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
genomic: GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAGgtgtactact ... tctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
EST: gi|76016845|gb|DT944015.1|DT944015
EST:     GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAG                         GTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
genomic: GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAGgtgtactact ... tctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
EST: gi|31911304|gb|CD651858.1|CD651858
EST:     GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAG                         GTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
genomic: GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAGgtgtactact ... tctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
EST: gi|71318555|gb|DR796038.1|DR796038
EST:     GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAG                         GTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
genomic: GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAGgtgtactact ... tctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
EST: gi|211013342|gb|FL464501.1|FL464501
EST:     GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAG                         GTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
genomic: GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAGgtgtactact ... tctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
EST: gi|211139185|gb|FL464627.1|FL464627
EST:     GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAG                         GTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
genomic: GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAGgtgtactact ... tctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
EST: gi|148950048|gb|EC895580.2|EC895580
EST:     GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAG                         GTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
genomic: GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAGgtgtactact ... tctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
EST: gi|211081279|gb|FL464186.1|FL464186
EST:     GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAG                         GTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA
genomic: GGGCTGCTCGGAGATCTCGCTCGGCGACACGACTGGTGTCGGGACACCAGgtgtactact ... tctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggagagaccggccaaaaactatactcactgcgatttgcaaacgtctctgcctcagGTAGCGTGGTTGCTATGCTTCAAGCTGTCATGTCGTTTGTCCCGGTGGACAAGATTGCCGTTCATTTCCACGATACGTACGGGCAGGCCCTTGCCAACAT
                     tactcac  putative branch site (score: 1)
                                           tctctgcctc  putative PPT
             aaaaactata  TA-rich tract