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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgttcacatgagcttgagcttcagtttcatggttctgttacttcttagttgttcagtattcatgcatgtgattgtctctcctgcagGACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTTGTG

Basic information

species Zea mays
transcript GRMZM2G040017_T01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G040017_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os04g55940.1 (Oryza sativa), 3'ss of exon 8
gtaagtgttcacatgagcttgagcttcagtttcatggttctgttacttc--ttagttgttcagtattcatgcatgtgattgtctctc--ctgcagGACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTTGTG
|||||  || | ||| |||     || |  ||  |  ||||| | ||||  ||   |  | | | |   || |  ||||||| ||||  |||||||||||||||||||||||||||||||| |||||||| ||||||||||||||||||
gtaagcatttagatgtgctcagttttgatgtttct--ttctgattcttctgttgtctcctaactgtctgtgtacatgattgtttctctgctgcagGACATAACACTGGGTGTTGCAATTGGGTCATCAACGCAGATATCAATGTTTGTG

upper sequence: GRMZM2G040017_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv09s0018g01840.t01 (Vitis vinifera), 3'ss of exon 8
gtaagtgttcacatgagcttgagcttcagtttcatggttctgttacttcttagttgttcagtattcatgcatgtgattgtctctcctgcagGACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTTGTG
|| |||| | | | ||     |      |||   |  || || |   | ||| || | | | ||| |   |  |       ||| ||  ||||||| ||| | || ||||||||||||||||| ||||| ||| |||||||||||
gtgagtgcttagaagaatgcaaat---ggttggttttttttgct-tatgttaattctgctg-attgacctacat-------tcttctatagGACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTTGTG
















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|211272295|gb|FL440029.1|FL440029
EST:     ATGCAGCTGAACATGCAAGTGCAATAATGTTTGCCATGAAAGATAAGCTT                         GACATAACACTGGGTGTTGCAATTGGTTCATCAACMCAGATATCAATGTTT
genomic: ATGCAGCTGAACATGCAAGTGCAATAATGTTTGCCATGAAAGATAAGCTTgtaagtgttc ... tctcctgcagGACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT
EST: gi|149085153|gb|EE174657.2|EE174657
EST:     ATGCAGCTGAACATGCAAGTGCAATAATGTTTGCCATGAAAGATAAGCTT                         GACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT
genomic: ATGCAGCTGAACATGCAAGTGCAATAATGTTTGCCATGAAAGATAAGCTTgtaagtgttc ... tctcctgcagGACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT
EST: gi|211010290|gb|FL457993.1|FL457993
EST:     ATGCAGCTGAACATGCAAGTGCAATAATGTTTGCCATGAAAGATAAGCTT                         GACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT
genomic: ATGCAGCTGAACATGCAAGTGCAATAATGTTTGCCATGAAAGATAAGCTTgtaagtgttc ... tctcctgcagGACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT
EST: gi|91868897|gb|EB400200.1|EB400200
EST:     ATGCAGCTGAACATGCAAGTGCAATAATGTTTGCCATGAAAGATAAGCTT                         GACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT
genomic: ATGCAGCTGAACATGCAAGTGCAATAATGTTTGCCATGAAAGATAAGCTTgtaagtgttc ... tctcctgcagGACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT
EST: gi|32837305|gb|CD976983.1|CD976983
EST:     ATGCAGCTGAACATGCAAGTGCAATAATGTTTGCCATGAAAGATAAGCTT                         GACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT
genomic: ATGCAGCTGAACATGCAAGTGCAATAATGTTTGCCATGAAAGATAAGCTTgtaagtgttc ... tctcctgcagGACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT
EST: gi|32836604|gb|CD976282.1|CD976282
EST:     ATGCAGCTGAACATGCAAGTGCAATAATGTTTGCCATGAAAGATAAGCTT                         GACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT
genomic: ATGCAGCTGAACATGCAAGTGCAATAATGTTTGCCATGAAAGATAAGCTTgtaagtgttc ... tctcctgcagGACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT
EST: gi|148972711|gb|EE023671.2|EE023671
EST:     ATGCAGCTGAACATGCAAGTGCAATAATGTTTGCCATGAAAGATAAGCTT                         GACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT
genomic: ATGCAGCTGAACATGCAAGTGCAATAATGTTTGCCATGAAAGATAAGCTTgtaagtgttc ... tctcctgcagGACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttctgttacttcttagttgttcagtattcatgcatgtgattgtctctcctgcagGACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTTGTG
                                        ttgtctctcct  CT-rich tract
                         tattcat  TA-rich tract