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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgcttctgtagaagaattttatatatttgatttgtatcctattttcacttggaacttatggtatgtgtatgcgtgtcttctggtcttgattttattagGTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAGAGTCTTAGGAAGTTTCCAGTCAAAG

Basic information

species Zea mays
transcript GRMZM2G401934_T04
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G401934_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g09000.1 (Oryza sativa), 3'ss of exon 2
tgtgcttctgtagaagaattttatatatttgattt--gtatcctattttcacttg--gaacttatggtatgtgta-tgcgtgtcttctggtcttgattttattagGTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAGAGTCTTAGGAAGTTTCCAGTCAAAG
     |||   | | |||| ||  || |  |||||  | ||   |||||||   |  |   ||||    | |  | ||    |  |    | |||| || ||||||| || ||||| ||||||||||||   |||||||||| |||| | ||||| ||||| | |||||||||||||||||
----attcaagacatgaatgttgaat-taggattttgggatataattttcatgcgatgggattataacttatacagtgtacattgttaccttttgaattgattagGTCAAGACAGGAATGCTCCCTTCAATCGGAGTAGTCAGAGTTTTATGTGAAAGTCTAAAGAAGTTTCCAGTCAAAG
















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|211201984|gb|FL401723.1|FL401723
EST:     TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTG                         GTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
genomic: TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTGgtgagcttct ... attttattagGTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
EST: gi|71435005|gb|DR816055.1|DR816055
EST:     TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTG                         GTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
genomic: TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTGgtgagcttct ... attttattagGTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
EST: gi|211382046|gb|FL389252.1|FL389252
EST:     TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTG                         GTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
genomic: TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTGgtgagcttct ... attttattagGTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
EST: gi|211204885|gb|FL411800.1|FL411800
EST:     TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTG                         GTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
genomic: TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTGgtgagcttct ... attttattagGTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
EST: gi|211171325|gb|FL398223.1|FL398223
EST:     TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTG                         GTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
genomic: TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTGgtgagcttct ... attttattagGTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
EST: gi|211112120|gb|FL406941.1|FL406941
EST:     TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTG                         GTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTT
genomic: TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTGgtgagcttct ... attttattagGTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTT
EST: gi|211420915|gb|FL387494.1|FL387494
EST:     TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTG                         GTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
genomic: TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTGgtgagcttct ... attttattagGTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
EST: gi|211080316|gb|FL423993.1|FL423993
EST:     TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTG                         GTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
genomic: TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTGgtgagcttct ... attttattagGTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
EST: gi|71430480|gb|DR811530.1|DR811530
EST:     TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTG                         GTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG
genomic: TCGTGGGAGAGCAGCTCAGGTCGGTTCTCTCGGACATGTCGGTGGACGTGgtgagcttct ... attttattagGTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcacttggaacttatggtatgtgtatgcgtgtcttctggtcttgattttattagGTGAAAACAGGGATGCTCCCTTCAGCTGGAGTAGTCAAAGTTCTGTGTGAGAGTCTTAGGAAGTTTCCAGTCAAAG
                                        tcttgat  putative branch site (score: 4)
                                              ttttatt  CT-rich tract
                                        tcttgattttatta  TA-rich tract