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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggattctcctctcctctcctctcccaggcagcaacaagctggataatagtggatattatatgattctatctatcctgctgacggattgaaactggaaccgtggcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT

Basic information

species Zea mays
transcript GRMZM2G374779_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G374779_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g01150.1 (Oryza sativa), 3'ss of exon 1
gtaggattct-cctctcctctcctctcccaggcagcaacaagctggataatagtgga-tattatatgattctatctatc--ctgctgacggattgaaactggaaccgtg---gcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT
||  || ||   | | ||   | || |   |    |||||      || ||  |||| || |      |   |  || |  || ||||             |  |||||   |||||||| || |||||||||| ||||||||| || |||||||||||    ||||||||||| ||||||| |||| | |||||||||||
gttagactcagtcaccccgtccgtcccttggcttccaacacctactattatgatggagtacttcggtttgacaagtagcagctactgatactcctcctgccgtgccgtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTCTCGCCGACTGGTCCGCCTCCCATGGCTACTGCCT

upper sequence: GRMZM2G374779_T04 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g01150.2 (Oryza sativa), 3'ss of exon 1
gtaggattctcctctcctctcctctcccaggcagcaacaagctgg-ataatagtgga-tattatatgattctatctatc--ctgctgacggattgaaactggaaccgtg---gcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT
||  || ||      ||  |||   ||  |||  | |  | ||   || ||  |||| || |      |   |  || |  || ||||             |  |||||   |||||||| || |||||||||| ||||||||| || |||||||||||    ||||||||||| ||                        
gttagactcagtcaccccgtccgtcccttggcttccaacacctactattatgatggagtacttcggtttgacaagtagcagctactgatactcctcctgccgtgccgtgcgtgcagGGATCGGAGACCAGTGCGCCAACCATGGTGTCGCCAAGTTCACCCGCCTTCTCGCCGACTG------------------------
















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|211340859|gb|FL372915.1|FL372915
EST:     CTCGCTGCGGCGGTTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACG                         GGATTGGGGACCAGTGCGCCAACCATGGCGTTGCCAAGTTCACTAAACTTC
genomic: CTCGCTGCGGCGG-TACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACGgtaggattct ... accgtggcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
EST: gi|211357926|gb|FL387018.1|FL387018
EST:     CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACG                         GGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
genomic: CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACGgtaggattct ... accgtggcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
EST: gi|211458917|gb|FL402420.1|FL402420
EST:     CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACG                         GGATTGGGGACCAGTGCGCCAACCATGGCGTTGCCAAGTTCACTAAACTTC
genomic: CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACGgtaggattct ... accgtggcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
EST: gi|211319230|gb|FL384888.1|FL384888
EST:     CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACG                         GGATTGGGGACCAGTGCGCCAACCATGGCGTTGCCAAGTTCACTAAACTTC
genomic: CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACGgtaggattct ... accgtggcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
EST: gi|101397865|gb|EB820809.1|EB820809
EST:     CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCGCG                         GGATTGGGGACCAGTGCGTCCACCATGGCGTTGCCGAGTTCACTAAACTTC
genomic: CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACGgtaggattct ... accgtggcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
EST: gi|211298857|gb|FL392428.1|FL392428
EST:     CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACG                         GGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
genomic: CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACGgtaggattct ... accgtggcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
EST: gi|211158456|gb|FL415219.1|FL415219
EST:     CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACG                         GGATTGGGGACCAGTGCGCCAACCATGGCGTTGCCAAGTTCACTAAACTTC
genomic: CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACGgtaggattct ... accgtggcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
EST: gi|211533538|gb|FL409967.1|FL409967
EST:     CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACG                         GGATTGGGGACCAGTGCGCCAACCATGGCGTTGCCAAGTTCACTAAACTTC
genomic: CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACGgtaggattct ... accgtggcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
EST: gi|211487556|gb|FL382361.1|FL382361
EST:     CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACG                         GGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
genomic: CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACGgtaggattct ... accgtggcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
EST: gi|211530844|gb|FL420796.1|FL420796
EST:     CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACG                         GGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
genomic: CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACGgtaggattct ... accgtggcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
EST: gi|32868245|gb|CF007927.1|CF007927
EST:     CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACG                         GGATTGGGGACCAGTGCGCCAACCATGGCGTTGCCAAGTTCACTAAACTTC
genomic: CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACGgtaggattct ... accgtggcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC
EST: gi|211504683|gb|FL413307.1|FL413307
EST:     CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACG                         GGATTGGGGACCAGTGCGCCAACCATGGCGTTGCCAAGTTCACTAAACTTC
genomic: CCTCGCTGCGGCGGTACAGACCTCCGCCCTGCCTTTCATCGTCCTGCACGgtaggattct ... accgtggcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatattatatgattctatctatcctgctgacggattgaaactggaaccgtggcagGGATTGGGGACCAGTGCGTCAACCATGGCGTTGCCAAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT
                        tgctgac  putative branch site (score: 2)
     tatatgatt  TA-rich tract