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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgtttttatcctttccctagaccctactcatgtggagcttccgacactgggtctgctctcggttgttgcttattggttttatttggcttacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCTGTGGCTGAGTGTGCACGACTGATTGAGCAACTAGAAGGCCAAATTTCTA

Basic information

species Zea mays
transcript GRMZM2G420865_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G420865_T01 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os12g29660.1 (Oryza sativa), 3'ss of exon 12
tttgtttttatcctttccctagaccctactcat--gtggagcttccgacactgggtctgctctcggttgttgcttattggttttatttggcttacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCTGTGGCTGAGTGTGCACGACTGATTGAGCAACTAGAAGGCCAAATTTCTA
 |  | | |   | ||     |||  |  | ||   ||    ||        |   ||||| | | ||||| ||||||||| ||  |||  || | |||||||||||||| |||||||||||||||||||||||||||||||||||||| ||||||||||||||||||  | |||||||| |||| ||||  ||||||||||
-taatgtatgagcattattgtgactatgatgatcaatgttatttttcgtttagccactgcttttgattgttacttattggtattcgttgaattgc-tttcagGCAAAGAAAGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAGCCTGTGGCTGAGTGTGCAAAATTGATTGAGGAACTTGAAGATCAAATTTCTA

upper sequence: GRMZM2G420865_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA09G15220.1 (Glycine max), 3'ss of exon 11
-tttgtttttatcctttccctagaccctactcatgtggagcttccgacactgggtctgctctcggttgttgcttattggttttatttggcttacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCTGTGGCTGAGTGTGCACGACTGATTGAGCAACTAGAAGGCCAAATTTCTA
  | |     || |   |   | |    |       |  | |      |  | |||         |   | |||||     |   ||  |  |    ||||||||||| |||||||||| |||||||||| ||||||||||| ||| || || |   | ||||  | |   | ||||||||| | |||| |||||||||| 
ggtagagaacatacaaactgaaaaaagaaaaagaaagttgatgttttaaacgagtcattatataatctcttcttatacacgtcgattttca-attaatcagGCAAAGAGGGCTGGTTCAAAGCTGAAAAGCCGCATTGTTGCTGAGCAATCTATACATAAGTGGTCTCATATAATTGAGCAAATGGAAGACCAAATTTCTG

upper sequence: GRMZM2G420865_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA02G25240.1 (Glycine max), 3'ss of exon 12
-tttgtttttatcctttccctagaccctactcatgtggagcttccgacactgggtctgctctcggttgttgcttattggttttatttggcttacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCTGTGGCTGAGTGTGCACGACTGATTGAGCAACTAGAAGGCCAAATTTCTA
  | |     || |   |   | |    |       |  | |      |  | | |         |  || |||||     |   ||  |  |    ||||||||||| ||| |||||| |||||||||| || |||||||| ||| || || |   | ||||  | |   | ||||||||| | |||| |||||||||| 
ggtagagaacatacaaactgaaaaaagaaaaagaaagttgatgttttaaacgagccattatataatcttttcttatacacgtcgattttca-attaatcagGCAAAGAGGGCAGGTTCAAAGCTGAAAAGCCGTATTGTTGCTGAGCAATCTATACATAAGTGGTCTCATATAATTGAGCAAATGGAAGACCAAATTTCTG

upper sequence: GRMZM2G420865_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA18G11950.1 (Glycine max), 3'ss of exon 12
tttgtttttatcctttccctagaccctactcatgtggagcttccgacactgggtctgctctcggttgttgcttattggttttatttggcttacctt--tcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCTGTGGCTGAGTGTGCACGACTGATTGAGCAACTAGAAGGCCAAATTTCTA
  ||||    |      | |  |  ||    |     || |        |   |  ||| |    |  |  || ||     | |     |||  ||  ||||||||||| ||| |||||| |||||||||| ||||||||||| ||| || || |   | ||||  | |   | ||||||||| | |||| |||||||||| 
-ctgttcaggtagagaacatgcaaactgaaaaaagaaagttgatttttttaa-tgagctattatataatctttcttatacatgtcgattttaaattaatcagGCAAAGAGGGCAGGTTCAAAGCTGAAAAGCCGCATTGTTGCCGAGCAATCTATACATAAGTGGTCTCATATAATTGAGCAAATGGAAGACCAAATTTCTG

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|211352888|gb|FL146172.1|FL146172
EST:     ATGC-GTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATT                         GCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
genomic: ATGCTGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATTgtaagtattt ... tacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
EST: gi|211352883|gb|FL146167.1|FL146167
EST:     ATGCCGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATT                         GCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
genomic: ATGCTGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATTgtaagtattt ... tacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
EST: gi|4887454|gb|AI677553.1|AI677553
EST:     ATGCCGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATT                         GCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
genomic: ATGCTGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATTgtaagtattt ... tacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
EST: gi|211352882|gb|FL146166.1|FL146166
EST:     ATGCCGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATT                         GCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
genomic: ATGCTGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATTgtaagtattt ... tacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
EST: gi|78027541|gb|DV495928.1|DV495928
EST:     ATGCCGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATT                         GCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
genomic: ATGCTGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATTgtaagtattt ... tacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
EST: gi|211352886|gb|FL146170.1|FL146170
EST:     ATGCCGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATT                         GCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
genomic: ATGCTGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATTgtaagtattt ... tacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
EST: gi|211352887|gb|FL146171.1|FL146171
EST:     ATGCCGTGACATTT-TAACCGATGATGATAGATGCCTCTTGAAAGCAATT                         GCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
genomic: ATGCTGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATTgtaagtattt ... tacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
EST: gi|211352885|gb|FL146169.1|FL146169
EST:     ATGCCGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATT                         GCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
genomic: ATGCTGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATTgtaagtattt ... tacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
EST: gi|4887453|gb|AI677552.1|AI677552
EST:     ATGCCGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATT                         GCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
genomic: ATGCTGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATTgtaagtattt ... tacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
EST: gi|33100275|gb|CF060235.1|CF060235
EST:     ATGCTGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATT                         GCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
genomic: ATGCTGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATTgtaagtattt ... tacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
EST: gi|32931983|gb|CF036795.1|CF036795
EST:     ATGCTGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATT                         GCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT
genomic: ATGCTGTGACATTTGTAACCGATGATGATAGATGCCTCTTGAAAGCAATTgtaagtattt ... tacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acactgggtctgctctcggttgttgcttattggttttatttggcttacctttcagGCAAAGAAGGCTGGTTCACAGCTGAAAAGTCGCATTGTTGCAGAGAAACCTGTGGCTGAGTGTGCACGACTGATTGAGCAACTAGAAGGCCAAATTTCTA
                                         ggcttac  putative branch site (score: 3)
                                           cttacctttc  CT-rich tract
                          ttattggttttattt  TA-rich tract