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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaattattgggtgtacgtgtgtacaccaatacaccatgtcctttactcggtttgcccctcattgggatgatgggttgatatatttgttgattctttcagGTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGCATGTGAAGGCAGAGAACGGAGTCATTCTCACCAAGCCCTTCCTTGATGT

Basic information

species Zea mays
transcript GRMZM2G060870_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G060870_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g40890.2 (Oryza sativa), 3'ss of exon 1
aaaattattgggtgtacgtgtgtacaccaatacaccatgtcctttactcggtttgcccctcattg-ggatgatgggttgatatatttgttgattc---tttcagGTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGCATGTGAAGGCAGAGAACGGAGTCATTCTCACCAAGCCCTTCCTTGATGT
   ||||     |||  ||| |  ||      |   |     ||     || ||     |   |  ||  |||  |||||   |||  ||| ||    || ||| |  | ||||||| ||||| |||||||| ||||| ||||| || ||||||||||| ||| |||||| | | ||||| |||||||||||||| ||||||||
---attagaaactgt-tgtgggatcagtgtctctttagtgaattagtgtggatttttgtttgctacggccgatatgttgacgcattcattgttttctattgcagCTAGAGAGATGGCCGAGACAGTGTTCACTCCCTCGTTGGAGGGTATGAAGCATGTTAAGTCAGAGAGCAGTGTCATACTCACCAAGCCCTTTCTTGATGT
















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|211301820|gb|FK983372.1|FK983372
EST:     CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAG                         GTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
genomic: CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAGgtattcgcac ... attctttcagGTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
EST: gi|211377987|gb|FK983378.1|FK983378
EST:     CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAG                         GTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
genomic: CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAGgtattcgcac ... attctttcagGTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
EST: gi|211301817|gb|FK983369.1|FK983369
EST:     CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAG                         GTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
genomic: CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAGgtattcgcac ... attctttcagGTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
EST: gi|211301814|gb|FK983366.1|FK983366
EST:     CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAG                         GTTCATAAATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGTATGAAGC
genomic: CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAGgtattcgcac ... attctttcagGTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
EST: gi|211301815|gb|FK983367.1|FK983367
EST:     CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACMAG                         GTTCATAGATGGCAGAGACGGTGTTCACCTSKCCTCTTTGGAAGGGATGAA
genomic: CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAGgtattcgcac ... attctttcagGTTCATAGATGGCAGAGACGGTGTTCACC--CCCTCTTTGGAAGGGATGAA
EST: gi|211301822|gb|FK983374.1|FK983374
EST:     CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAG                         GTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
genomic: CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAGgtattcgcac ... attctttcagGTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
EST: gi|211377989|gb|FK983380.1|FK983380
EST:     CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAG                         GTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
genomic: CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAGgtattcgcac ... attctttcagGTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
EST: gi|211301812|gb|FK983364.1|FK983364
EST:     CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAG                         GTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
genomic: CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAGgtattcgcac ... attctttcagGTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
EST: gi|211301818|gb|FK983370.1|FK983370
EST:     CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAG                         GTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
genomic: CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAGgtattcgcac ... attctttcagGTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
EST: gi|211377986|gb|FK983377.1|FK983377
EST:     CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAG                         GTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
genomic: CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAGgtattcgcac ... attctttcagGTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
EST: gi|211453296|gb|FL230458.1|FL230458
EST:     CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAG                         GTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC
genomic: CAGCCTCGTCGGCTTCTTCGCACCCGTCACCGGCGGTCAGCACCCACCAGgtattcgcac ... attctttcagGTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actcggtttgcccctcattgggatgatgggttgatatatttgttgattctttcagGTTCATAGATGGCAGAGACGGTGTTCACCCCCTCTTTGGAAGGGATGAAGCATGTGAAGGCAGAGAACGGAGTCATTCTCACCAAGCCCTTCCTTGATGT
                                        tgttgat  putative branch site (score: 4)
                                              ttctttc  CT-rich tract
                                 atatatttgttgatt  TA-rich tract