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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgccttcgctcctcttgattcaagagatggtgcattcaaatgattttgtactgttgaaatcttttaccccatcgtgacgttcgtagctttttaatgcagCTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAACAGTTGCTTCACATCTTCAG

Basic information

species Zea mays
transcript GRMZM2G495626_T04
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G495626_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g67160.1 (Oryza sativa), 3'ss of exon 4
ttgccttcgctcctcttgattcaagagatggtgcattcaaatgattttgtactgttgaaat-cttttaccccatcgtgacgttcgtagctttttaatgcagCTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAACAGTTGCTTCACATCTTCAG
|   |  |     || |  ||         ||   | |      ||  ||||     | || ||    || |||  |||   ||||| || ||  || |||||||||||| | || | || ||||| ||||| |||||||| ||||||||||||||||||||||| |||||
taagcagcatatatcatacttttgcttcaagtttttcccttgctttcagtacaaaaaacatactgcctcctcattttgattctcgta-ctgttctatacagCTGAAATGGTCAGAAGACAAGCTCTTTTTCCAGGTGACTCTGAGTTGCAACAGTTGCTTCACATTTTCAG
















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|149101462|gb|EE187582.2|EE187582
EST:     AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG                         CTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
genomic: AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTGgtaagtctgt ... tttaatgcagCTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
EST: gi|71450237|gb|DR831287.1|DR831287
EST:     AACACATTACTCTACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG                         CTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
genomic: AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTGgtaagtctgt ... tttaatgcagCTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
EST: gi|71771339|gb|DR969276.1|DR969276
EST:     AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG                         CTGAAATGGCCCGACGGCAGGCTCTCTTTCCTG
genomic: AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTGgtaagtctgt ... tttaatgcagCTGAAATGGCCCGACGGCAGGCTCTCTTTCCTG
EST: gi|91055879|gb|EB166297.1|EB166297
EST:     AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG                         CTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
genomic: AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTGgtaagtctgt ... tttaatgcagCTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
EST: gi|87157025|gb|DY401814.1|DY401814
EST:     AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG                         CTGAAATGGGCCGACGGCAGGCTCTCTT
genomic: AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTGgtaagtctgt ... tttaatgcagCTGAAATGGCCCGACGGCAGGCTCTCTT
EST: gi|76289583|gb|DV029151.1|DV029151
EST:     AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG                         CTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
genomic: AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTGgtaagtctgt ... tttaatgcagCTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
EST: gi|91872387|gb|EB402344.1|EB402344
EST:     AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG                         CTGAAATGGCCCGACGGCAGGCTCTCCTTCCTGGTGACTCGGAGTT-CAAC
genomic: AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTGgtaagtctgt ... tttaatgcagCTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
EST: gi|211362664|gb|FL128442.1|FL128442
EST:     AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG                         CTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
genomic: AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTGgtaagtctgt ... tttaatgcagCTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
EST: gi|76294289|gb|DV033857.1|DV033857
EST:     AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG                         CTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
genomic: AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTGgtaagtctgt ... tttaatgcagCTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
EST: gi|71313277|gb|DR793172.1|DR793172
EST:     AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG                         CTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
genomic: AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTGgtaagtctgt ... tttaatgcagCTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAAC
EST: gi|71431609|gb|DR812659.1|DR812659
EST:     AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTG                         CTGAAATGGCCCGACGGCAGGCTCTCTTT
genomic: AACACATTACTCAACTGGCGTTGATATGTGGTCTGTTGGATGCATCTTTGgtaagtctgt ... tttaatgcagCTGAAATGGCCCGACGGCAGGCTCTCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtactgttgaaatcttttaccccatcgtgacgttcgtagctttttaatgcagCTGAAATGGCCCGACGGCAGGCTCTCTTTCCTGGTGACTCGGAGTTGCAACAGTTGCTTCACATCTTCAG
                                            ttttaat  putative branch site (score: 3)
                                          cttttt  CT-rich tract
            aaatctttta  TA-rich tract