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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTAGTTCACCAGAAGAGCAAGAAAAATATATGAGGAATTGGCTGGAAGAAAGAGTTGGTTTCAAGACAGACTTCAAAATATCATTTTATCCTGGAAAGgtaactcttccttttttcagcacaatgcttgaacactatgtgcatagctcacgtagtcgcaatttttccaactacag

Basic information

species Zea mays
transcript GRMZM2G175453_T02
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G175453_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os11g05990.1 (Oryza sativa), 5'ss of exon 4
TTTTAGTTCACCAGAAGAGCAAGAAAAATATATGAGGAATTGGCTGGAAGAAAGAGTTGGTTTCAAGACAGACTTCAAAATATCATTTTATCCTGGAAAGgtaactcttc-cttttttcagca------caatgcttgaacactatgtgcatagctcacgtagtcgcaattttt--ccaactacag
 |||||||| ||| |||| ||||||   |||||||||| ||||||||||||||| |||||||||||||||||||||||||||||||| ||||||||||||||||   ||| |||||   | ||       ||   |  |||| | ||| |||  ||    || |  ||||| ||  | || || ||
ATTTAGTTCTCCACAAGAACAAGAAGCTTATATGAGGAGTTGGCTGGAAGAAAGGGTTGGTTTCAAGACAGACTTCAAAATATCATTCTATCCTGGAAAGgtaagggttctcttttcataacaagtgaataaccttgcaacattgtgttcattacttgtctaatatcaattgtttgcaaagtatag

upper sequence: GRMZM2G175453_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA03G36050.1 (Glycine max), 5'ss of exon 4
TTTTAGTTCACCAGAAGAGCAAGAAAAATATATGAGGAATTGGCTGGAAGAAAGAGTTGGTTTCAAGACAGACTTCAAAATATCATTTTATCCTGGAAAGgtaactc--ttccttttttcagcacaatgcttgaacactatgtgcatagctcacgtagtcgcaatttttccaactacag---------------
||||| |||||||||||| ||||||   |||||  | |  ||||| || |||||  ||||||| ||| ||||||||||||| || |||||||| || |||||||||   |       ||    | ||| ||| |     ||      |  |||| || |  || || ||     |                   
TTTTACTTCACCAGAAGAACAAGAAGCTTATATACGTAGCTGGCTTGAGGAAAGGATTGGTTTTAAGGCAGACTTCAAAATTTCTTTTTATCCCGGGAAGgtaacttaatgagaaagttagctataatccttta-tgtcatactttcatatcac-tactgtcagttcttatgtttttgtcattctcatgtgtag

upper sequence: GRMZM2G175453_T02 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA19G38720.1 (Glycine max), 5'ss of exon 4
TTTTAGTTCACCAGAAGAGCAAGAAAAATATATGAGGAATTGGCTGGAAGAAAGAGTTGGTTTCAAGACAGACTTCAAAATATCATTTTATCCTGGAAAGgtaactcttcctttt--ttcagcacaatgcttgaacactatgtgcatagctcacgtagtcgcaattt-----ttccaactacag
||||| ||| |||||||| || |||   |||||  | |  ||||| || |||||  ||||||||||| ||||||||||||| || |||||||| || ||||||||| ||   |    ||    |      ||       || |   ||      ||  |  || |||     |  ||  |  ||
TTTTACTTCGCCAGAAGAACAGGAAGCTTATATACGTAGCTGGCTTGAGGAAAGGATTGGTTTCAAGGCAGACTTCAAAATTTCTTTTTATCCCGGGAAGgtaactttttggtaaagttagctatttcctttatgtttcatatcactactgtcggttcttacattttgaaattctcatgtgtag

upper sequence: GRMZM2G175453_T02 (Zea mays), 5'ss of exon 5
lower sequence: PP1S123_79V6.1 (Physcomitrella patens), 5'ss of exon 4
TTTTAGTTCACCAGAAGAGCAAGAAAAATATATGAGGAATTGGCTGGAAGAAAGAGTTGGTTTCAAGACAGACTTCAAAATATCATTTTATCCTGGAAAGgta------actcttccttttttcagcacaatgcttgaacactatgtgcatagctcacgtagtcgcaatttttccaactacag-----------------
 |||   || || |  ||||| ||||  |   || | || ||| |||||||  ||||||||||||||   |||||||| ||||||||||||||||| || ||       |  || ||| | | |    |  |          |   ||    |   |  |    |   | | |  |  | |                   
CTTTGAATCCCCTGCCGAGCAGGAAAGCTTCGTGCGAAAGTGGGTGGAAGACCGAGTTGGTTTCAAGTGTGACTTCAAGATATCATTTTATCCTGGCAAAgtgtgatttatgctccctctctccctgtcgctctccctctctttcttgttgggtatagatgcctgtcctgtctttatgtgctacgtgctgctgttgagct

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|32926527|gb|CF031339.1|CF031339
EST:     AAAGGGTTGGTTTCAAGACAGACTTCAAAATATCATTTTATCCTGGAAAG                         TTTCAAAAGGAAAGGAGAAGCATAATTCCTGCTGGGGACACTTCACAGTTC
genomic: AAAGAGTTGGTTTCAAGACAGACTTCAAAATATCATTTTATCCTGGAAAGgtaactcttc ... ccaactacagTTTCAAAAGGAAAGGAGAAGCATAATTCCTGCTGGGGACACTTCACAGTTC
EST: gi|13237069|gb|BG355083.1|BG355083
EST:     AAAGAGTTGGTTTCAAGACAGACTTCAAAATATCATTTTATCCTGGAAAG                         TTTCAAAAGGAAAGGAGAAGCATAATTCCTGCTGGGGACACTTCACAGTTC
genomic: AAAGAGTTGGTTTCAAGACAGACTTCAAAATATCATTTTATCCTGGAAAGgtaactcttc ... ccaactacagTTTCAAAAGGAAAGGAGAAGCATAATTCCTGCTGGGGACACTTCACAGTTC
EST: gi|13237254|gb|BG355268.1|BG355268
EST:     AAAGAGTTGGTTTCAAGACAGACTTCAAAATATCATTTTATCCTGGAAAG                         TTTCAAAAGGAAAGGAGAAGCATAATTCCTGCTGGGGACACTTCACAGTTC
genomic: AAAGAGTTGGTTTCAAGACAGACTTCAAAATATCATTTTATCCTGGAAAGgtaactcttc ... ccaactacagTTTCAAAAGGAAAGGAGAAGCATAATTCCTGCTGGGGACACTTCACAGTTC