Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttggaattaaccattggtgggccagcttatccccataagcatttctgatgttgtacttgccgaggtaatgatcacaaaaatttatgttctttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTGATGGGCATGTC

Basic information

species Zea mays
transcript GRMZM2G125310_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G125310_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g22970.1 (Oryza sativa), 3'ss of exon 2
tttggaattaacc-attggtgggccagcttatccccataagcatttctgatgttgtacttgccgaggtaatgatcacaaaaatttatgttctttgttt-cagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTGATGGGCATGTC
     | ||     |||||||||||| | | |    |  ||  ||  |    | ||  ||    |   |||||| |  ||| | | |  | |||  || |||||||| ||||| ||||| ||||||||||| || ||||||||||| |||||||||||||||||
--cacatttggttgattggtgggccaccatgttattagcagttttgattgattggtttttttttattgaatgattaggaaattctgttctttttccttgcagATGTTCCGTGTAAAGGATCCAAAAGTGAGTCTCGACTTCTACTCGCGTGTGATGGGCATGTC
















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|13178259|gb|BG349517.1|BG349517
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|78113103|gb|DV531497.1|DV531497
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|149071547|gb|EE159940.2|EE159940
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|13198653|gb|BG354455.1|BG354455
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|211376698|gb|FL282321.1|FL282321
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|18168536|gb|BM338376.1|BM338376
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|37378102|gb|CF625710.1|CF625710
EST:     GCCACCNAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: GCCACC-AAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|29544286|gb|CB604666.1|CB604666
EST:     GCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTNCACGTGT
genomic: GCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACT-CACGTGT
EST: gi|211376699|gb|FL282322.1|FL282322
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|211376692|gb|FL282315.1|FL282315
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|113701200|gb|EE678704.1|EE678704
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|213174962|gb|FM184828.1|FM184828
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|211338211|gb|FL470835.1|FL470835
EST:     CTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: CTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|211376696|gb|FL282319.1|FL282319
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|211280531|gb|FL042849.1|FL042849
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|67022929|gb|CO451678.1|CO451678
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|113703344|gb|EE680848.1|EE680848
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|30087092|gb|CB885300.1|CB885300
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|18173071|gb|BM348459.1|BM348459
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACCTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|29167847|gb|CB411107.1|CB411107
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAGAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|67031599|gb|CO460348.1|CO460348
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|40334690|gb|CK368760.1|CK368760
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|211376693|gb|FL282316.1|FL282316
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|30087617|gb|CB885823.1|CB885823
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGATGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|211376697|gb|FL282320.1|FL282320
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|149069536|gb|EE157909.2|EE157909
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|71314913|gb|DR794077.1|DR794077
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|113702988|gb|EE680492.1|EE680492
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|78080156|gb|DV508568.1|DV508568
EST:     GCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: GCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
EST: gi|30032081|gb|CB833932.1|CB833932
EST:     TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACG                         ATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG
genomic: TCCAGACCGAGGTCGACCCCGCCACCAAAGGCTACTTCTTGCAACAAACGgtaacgcgag ... tttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgatgttgtacttgccgaggtaatgatcacaaaaatttatgttctttgtttcagATGTTACGTGTGAAGGACCCAAAAGTGAGCCTTGACTTCTACTCACGTGTGATGGGCATGTC
 ttctgat  putative branch site (score: 3)
                                          ttctttgtttc  putative PPT
                               aaaaatttatgttctt  TA-rich tract