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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaactccccgtcttcatgataaatgcacatgtccattatatatgttagttctgacagtgacaaccaaccacattgtgttttgtgtttcagGGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGTGCAGCAAAACCACAATGAATGTACTGTTTCAGTTTAGTATCGATGAGAT

Basic information

species Zea mays
transcript GRMZM2G081188_T01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G081188_T02 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os01g66350.1 (Oryza sativa), 3'ss of exon 12
---------------------gtaaaaact--ccccgtcttcatgataaatgcacatgtccat---tatatatgttagttctgacagtgac------aaccaaccacat--tgtgttttgtgtttcagGGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGTGCAGCAAAACCACAATGAATGTACTGTTTCAGTTTAGTATCGATGAGAT--
                      |||| |||  |||   | ||   |  | |  | ||     |   ||      ||   |   || ||  |      |   ||| ||||  | | || |||   |||||||||||||||||||||||| |||||||||||||| || ||||| || ||| | ||||  ||| ||||| | ||||||| | |     |  | ||    |  
gtactattccttgtctttgtgataaatactgacccttgcatcccaactactagatataattgtggataagccacttgaatgaaacggttgctgcatgacttaacaacatcctcttttctgtacctcagGGTTGGATAATGTCAGAATCACTGCTCAACCCTGGGAAAGCTCGGTTGTGTCCTGCAAGGCCATAATGATTTTACTGTTACTGG--GATGGCAATATCTTTC

upper sequence: GRMZM2G081188_T02 (Zea mays), 3'ss of exon 12
lower sequence: AT5G49820.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaaaaactccccgtcttcatgataaatgcacatgtccattatatatgttagttctgacagtgacaaccaaccacattgtgttttgtgtttcagGGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT---GCAGCAAAACCACAATGAATGTA--CTGTTTCAGTTTAGTATCGATGAGAT
               |||      ||      || ||| || ||  |  |      ||  ||| || |  |  | |||   |||||      ||||||||| |||||||||||||||||| || ||||||  |||| | ||||||   |      |     | | ||  |   |||||     |    |||||      
-----------gtaacttgggagaaacctgttatatcctttttaagttatttaatcgagtgtg-catctga--aaattccattttga----tagGGTTGGAGAATGTCAGAATCTCTGCTTAATCCTGGCCGGGCTAGGTTATGTCATGTGAAGGAGGGGGAGTAAACATCGCCTGTTGAGACTGGTCATCGAC-----
















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|6448429|gb|AW181195.1|AW181195
EST:     AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAG                         GGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
genomic: AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAGgtaaaaactc ... tgtgtttcagGGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
EST: gi|74240504|gb|DT648418.1|DT648418
EST:     AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAG                         GGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
genomic: AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAGgtaaaaactc ... tgtgtttcagGGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
EST: gi|148953713|gb|EC899077.2|EC899077
EST:     AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAG                         GGTTGGATAATGTCAGAATCTTTGCTCAACCCTGGCAAGGCTCGATTATGT
genomic: AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAGgtaaaaactc ... tgtgtttcagGGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
EST: gi|32936978|gb|CF041797.1|CF041797
EST:     AAATCGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCAAGGGAACAG                         GGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
genomic: AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAGgtaaaaactc ... tgtgtttcagGGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
EST: gi|91056032|gb|EB166450.1|EB166450
EST:     AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAG                         GGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
genomic: AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAGgtaaaaactc ... tgtgtttcagGGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
EST: gi|60339465|gb|DN206438.1|DN206438
EST:     AAATCGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCAAGGGAACAG                         GGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
genomic: AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAGgtaaaaactc ... tgtgtttcagGGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
EST: gi|211481484|gb|FL479226.1|FL479226
EST:     AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAG                         GGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
genomic: AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAGgtaaaaactc ... tgtgtttcagGGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
EST: gi|6526668|gb|AW215959.1|AW215959
EST:     AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAG                         GGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
genomic: AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAGgtaaaaactc ... tgtgtttcagGGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT
EST: gi|32864357|gb|CF004039.1|CF004039
EST:     GGAACATTCAAGAAGAAAGCAAGGGAACAG                         GGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGGCTCGATTATG
genomic: GGAACATTCAAGAAGAAAGCTAGGGAACAGgtaaaaactc ... tgtgtttcagGGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAA-GGCTCGATTATG
EST: gi|60397619|gb|DN230435.1|DN230435
EST:     AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAG                         GGTTGGATAATGTCAGAATTTTTGCTCAACCCTGGCAAGGCTCGATTATGT
genomic: AAATAGTTTCCTCATCATATGGAACATTCAAGAAGAAAGCTAGGGAACAGgtaaaaactc ... tgtgtttcagGGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatatatgttagttctgacagtgacaaccaaccacattgtgttttgtgtttcagGGTTGGATAATGTCAGAATCTCTGCTCAACCCTGGCAAGGCTCGATTATGTGCAGCAAAACCACAATGAATGTACTGTTTCAGTTTAGTATCGATGAGAT
             ttctgac  putative branch site (score: 2)
     tatgtta  TA-rich tract