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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtatacacatctttcttagagcgatggtttcttttggttgttatatcataacctttttttttttgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTATCAGTCCCTTATTGTTACACTGGGTTCGCTGCCAAAGTCAACCCGAGTTT

Basic information

species Zea mays
transcript GRMZM2G031825_T05
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G031825_T05 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g21460.1 (Oryza sativa), 3'ss of exon 4
gttagtatacacatctttcttagagcgatggtttcttttggttgttatatcataacctttttttttttgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTATCAGTCCCTTATTGTTACACTGGGTTCGCTGCCAAAGTCAACCCGAGTTT
|||||||||  |||||  |||| || ||||| | |||||   | | | ||    |||||  |||||      || ||||||||||||| |||||||  |||||||||||  |||||||||||||||| || ||||||  ||| |||||||| |||||||| ||| |||| | |||||
gttagtatatgcatctgacttacagtgatggctccttttctatttaacatatcgaccttccttttt----ggtatagTTCATTGCTGGTTGTGGGAGATTTTTTGAGGGCACTGCAGAGCAAATGTACCAATCCCTTTGTGTAACACTGGGCTCGCTGCCTAAGCCAACTCAAGTTT

upper sequence: GRMZM2G031825_T05 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA14G36610.2 (Glycine max), 3'ss of exon 4
----------------------------------------------------------------------------------------------------------------gttagtatacacatctttcttagagcgatggtttcttttggttgttatatcataacctttttttttttgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTATCAGTCCCTTATTGTTACACTGGGTTCGCTGCCAAAGTCAACCCGAGTTT
                                                                                                                  |    |  | ||   | ||  || |||      |||   |   |  ||  | |   | || || ||    ||||||| |||||| | |||||||| |||||||| ||  ||||||| || ||||||||||| |||| ||| ||||| | |||  | ||||||||||| ||||| |
gtaagatgactgctcaatctttttaacatcacaaagaagtagttatttggaaaacatgtaaagctgtaacaagtgcttgtatttttcgctctcattctttctctctgtgaaaactttcgtgtatatgaattttgaagagat---ccttttaaatctctggat--ttattgtgttattgtttctctacagTTTATTGCTAGTTGTGGGAAATTTTTTGAAGGAACTGCAGAACAGATGTATCAGTCACTTAATGTAACACTCGCTTCATTACCAAAGTCAACTCGAGTAT

upper sequence: GRMZM2G031825_T05 (Zea mays), 3'ss of exon 3
lower sequence: AT3G10850.1 (Arabidopsis thaliana), 3'ss of exon 4
--------------------------------------------------------------gttagtatacacatctttcttagagc---gatggtttcttttggttgttatatcataacctttttttttttgaa----atacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTATCAGTCCCTTATTGTTACACTGGGTTCGCTGCCAAAGTCAACCCGAGTTT
                                                                |||       |||| | | |  |     ||||      ||    |||| |   ||| || | |||  ||  |    ||||||||  ||||||| ||||||||||||||||| ||  | || ||||| |||||||||||  |   ||| || |||| | |  | || ||  | || |  ||||
gtaagtggtaacattaagctgaatcctcttgttcttccctaccatggaccctatatgttctccgtagatcttttatctctgtaaatgtctaaatggagatagttatgagttaaacattaagctgtgtttactttgattttatacagTTTGTTGCTGGATGTGGGAAGTTTTTTGAAGGGACAGCTGAGCAGATGTATCAGTCGTTGTGTGTGACTCTGGCTGCATTACCTAAACCGACACAGGTTT

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|60343728|gb|DN210701.1|DN210701
EST:     TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
genomic: TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|60352510|gb|DN219483.1|DN219483
EST:     TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCCAATGTAT
genomic: TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|32799175|gb|CD951411.1|CD951411
EST:     GATCCGGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
genomic: GATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|32857618|gb|CD997299.1|CD997299
EST:     TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
genomic: TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|32930530|gb|CF035342.1|CF035342
EST:     TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
genomic: TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|74233977|gb|DT641891.1|DT641891
EST:     TTCTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATATAT
genomic: TACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACC-GGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|60357818|gb|DN224791.1|DN224791
EST:     TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGNNNNNNNGAGGGTTCTGCAGAGCAAATGTA
genomic: TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAG-TTTTTTGAGGGTTCTGCAGAGCAAATGTA
EST: gi|71773157|gb|DR971070.1|DR971070
EST:     TACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
genomic: TACTAGTAAGGAGGGTGAAGATCCAGCGGTC-TTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|71430487|gb|DR811537.1|DR811537
EST:     TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
genomic: TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|67033911|gb|CO462660.1|CO462660
EST:     TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
genomic: TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|60345729|gb|DN212702.1|DN212702
EST:     TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGNNNNNNNGAGGGTTCTGCAGAGCAAATGTA
genomic: TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAG-TTTTTTGAGGGTTCTGCAGAGCAAATGTA
EST: gi|34391313|gb|CF384541.1|CF384541
EST:     TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
genomic: TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|211460283|gb|FL454155.1|FL454155
EST:     TTACTAGTAAGGA-GGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
genomic: TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|76285780|gb|DV025348.1|DV025348
EST:     TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGCTCTGCAGAGCAAATGTAT
genomic: TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|32800109|gb|CD952345.1|CD952345
EST:     GATCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGGAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
genomic: GATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|51592666|gb|CV071812.1|CV071812
EST:     TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
genomic: TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|86466772|gb|DY233142.1|DY233142
EST:     TCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
genomic: TCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|60346352|gb|DN213325.1|DN213325
EST:     TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
genomic: TTACTAGTAAGGAGGGTGAAGATCCAGCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
EST: gi|32826625|gb|CD966303.1|CD966303
EST:     GCGGTCTTCACCGGAGATACCTTG                         TTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT
genomic: GCGGTCTTCACCGGAGATACCTTGgttagtatac ... tgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagcgatggtttcttttggttgttatatcataacctttttttttttgaaatacagTTCATTGCTGGGTGTGGGAAGTTTTTTGAGGGTTCTGCAGAGCAAATGTATCAGTCCCTTATTGTTACACTGGGTTCGCTGCCAAAGTCAACCCGAGTTT
                           tcataac  putative branch site (score: 2)
                              taaccttttttttttt  CT-rich tract
                      ttatatcataaccttt  TA-rich tract