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'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaacactattctttgttttttttacttcattacttgtgatgcttccaagcttgcaatcgtgatttgtattatcctaaagcacgattcatttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTAACTCACGTCAATCTCAACGATAATAGTTGCGCTGGCCTCCAGTACTCCA

Basic information

species Zea mays
transcript GRMZM2G029573_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G029573_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os02g47850.1 (Oryza sativa), 3'ss of exon 10
aaaacactattctttgttttttttacttcattacttgtgatgctt-ccaagcttgcaatcgtgatt-tgtattatcctaaagc---acgattcatttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTAACTCACGTCAATCTCAACGATAATAGTTGCGCTGGCCTCCAGTACTCCA
     |   ||||  || ||   || ||      ||||  | |||  ||  |||||| |    | | || | | | | |  |    ||  |   |||| ||| |||||||||| || || ||||||||||| ||||| |||||||| |  |||||||| ||  ||||||||||||||||||| || || ||||| |||||| | |
-----atatttctgagtcttagctattttcccctttgttttacttgtcatacttgcatttactactgtgcaatctgcaattgtcttaccgtatttttctctgcagAACCATAATTATGCTGTTGACCCAGAGTCACTTCCAGAAGGGGTGAAAGTAACACATATCAATCTCAACGATAATAGCTGTGCCGGCCTTCAGTACCCTA
















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|6445511|gb|AW179429.1|AW179429
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAG
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAG
EST: gi|31362536|gb|CD446893.1|CD446893
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         ACCCATATCTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|71760287|gb|DR958224.1|DR958224
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|32845426|gb|CD985107.1|CD985107
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|211106984|gb|FL115271.1|FL115271
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|211518595|gb|FL052563.1|FL052563
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTW
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|33101065|gb|CF061025.1|CF061025
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|6342748|gb|AW165572.1|AW165572
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|67018136|gb|CO446885.1|CO446885
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|211038354|gb|FL445366.1|FL445366
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|37401297|gb|CF638011.1|CF638011
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|32844104|gb|CD983785.1|CD983785
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|60343079|gb|DN210052.1|DN210052
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|6012497|gb|AW061934.1|AW061934
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|88751312|gb|DY535453.1|DY535453
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|211287671|gb|FL254549.1|FL254549
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAATGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|71764309|gb|DR962246.1|DR962246
EST:     CATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: CATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|31356811|gb|CD441168.1|CD441168
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|32844356|gb|CD984037.1|CD984037
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA
EST: gi|37379091|gb|CF626275.1|CF626275
EST:     ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACTTAAGTGCACAG                         AACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAATAGTA
genomic: ATCACCCTGTCTGTGATCTCCGTAGTGGACGTGTAGACATAAGTGCACAGgtttgttcct ... ttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaagcttgcaatcgtgatttgtattatcctaaagcacgattcatttccctgtagAACCATAACTACGCAGTTGACCCAGAATCACTCCCAGAAGGAGCAAAAGTAACTCACGTCAATCTCAACGATAATAGTTGCGCTGGCCTCCAGTACTCCA
                           tcctaaa  putative branch site (score: 2)
                                        ttcatttccct  putative PPT
                 atttgtattat  TA-rich tract