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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgtattctggcatcttatttggttaacaatctttatattgacttctgtttgaaggatgaattactgatttactgttgatctgaggtgtaaattttgttcctattttaaatatatcttgtgataatatccattatatcaccggtttcttttggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTCTGCATTTATGAGCAACTTCGAATTGGCTACAAACTTGTG

Basic information

species Zea mays
transcript GRMZM2G042027_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G042027_T05 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os05g29860.1 (Oryza sativa), 3'ss of exon 7
gtatgtgtattctggcatcttatttggt------------taacaatctttatattgacttctgtttgaaggatgaattactgatttactgttgatctgag---gtgtaaattttgttcctattttaaata----tatcttgtgataatatccatta-------tatcac-cggtttcttttggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTCTGCATTTATGAGCAACTTCGAATTGGCTACAAACTTGTG
|||||| | ||||| | || ||| ||||            || |    |  |   | | || ||||       |  ||| | |    | |  | || |||    || |||  |   ||  || || || |     ||   ||  | || |  ||||        | |||  | ||||||||| |||||||||| ||||| || ||| ||||||||||||| || ||||||||||| || ||||| || |||||||||||||||||||| |||||| |||||
gtatgtatcttctgacctcatatatggtggaacctgtatttagccgattcaactctaatttttgttatccctgtatatttcaggaaaaataattatttgaatctgtttaatatgcctttttaattgaattgttgttacaatggaaaaaaactcattgccttccttgtcatactgtttctttttgtttgtagGGATATGGATCATTTTTACTTCGAGATCTGCCTTTTGATGCCATTCAATTCTGTATATATGAGCAACTTCGAATTGGTTACAAAGTTGTG

upper sequence: GRMZM2G042027_T05 (Zea mays), 3'ss of exon 7
lower sequence: PP1S139_9V6.1 (Physcomitrella patens), 3'ss of exon 8
gtatgtgtattctggcatcttatttggttaacaatctttatattgactt--ctgtttgaaggatgaattactgatttactgttgatctgaggtgtaaattttgttcctattttaaatatatcttgtgataatatccattatatcaccggtttcttttggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTCTGCATTTATGAGCAACTTCGAATTGGCTA--CAAACTTGTG
   |  || ||   || |  |   || | |  | |||  ||  | |  |   | |||   |  ||     | |   | |   ||  |  ||    | ||  | |||| |         ||   ||   | ||    |   | |||  ||||     || |||  |||| | | |||| ||  |  | ||||| ||||||||||||||  ||||||| ||||| ||||||||| |    ||  | ||  ||||   |  
--gtaagtttttgagctttctgaatgatcag-agtctccatgcttatatgattcttttgcgtgtgttcgtccgccctgcccgtggac-aagtatcacataattttcccacaaccttgttagtatgaattcatgcttacactgtcattggttg----tgatttacagGGCTTTCGTTCATTCTTGTTACGAGACCTACCATTTGATGCATTCCAGTTTTGCATCTATGAGCAATTAAAGATCAGTTATGCAAAACGG--

upper sequence: GRMZM2G042027_T05 (Zea mays), 3'ss of exon 7
lower sequence: PP1S450_16V6.1 (Physcomitrella patens), 3'ss of exon 8
gtatgtgtattctggcatcttatttggttaacaatctttatattgacttctgtttgaaggatgaattactgatttactgttgatctgaggtgtaaattttgttcctattttaaatatatcttgtgataatatccattatatcaccggtttcttttggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTCTGCATTTATGAGCAACTTCGAATTGGCTACAAACTTGTG
                          ||     |||||| | ||  ||| | ||  |   ||          |  |    |    | | ||   | || | | | | |     |  | |  |  |||  | | || | ||      | |  |||||  ||| |||||| ||| || || || ||||||||| ||||||||||||| |||||||| |||||||| ||||| ||| || | ||||  ||    |||
--------------------------gtatgtgatctttctcttagcttgtcttcaagaaat----------tccatcactctcgttatgtcccatttatctgcatgtgcaggaagtgtacttcgat--tgtacactctaat----ggtctttttgaattgcagGGTTTTGGATCTTTCCTCCTTCGAGATTTACCATTTGATGCTATCCAGTTTTGCATTTACGAGCAGCTTAGATTGGGCTTGAAGAAAGTG

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|78092776|gb|DV521150.1|DV521150
EST:     TAAAGGACTGTACGCT                         GGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
genomic: TAAAGGACTGTACGCTgtatgtgtat ... tggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
EST: gi|50325364|gb|CO520490.1|CO520490
EST:     ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCT                         GGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
genomic: ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCTgtatgtgtat ... tggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
EST: gi|71436673|gb|DR817723.1|DR817723
EST:     ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCT                         GGTTATGGTTCCTTTCTACTTCGAGATCTACCATTT
genomic: ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCTgtatgtgtat ... tggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTT
EST: gi|113702185|gb|EE679689.1|EE679689
EST:     AAGGACTGTACGCT                         GGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
genomic: AAGGACTGTACGCTgtatgtgtat ... tggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
EST: gi|71302083|gb|DR787129.1|DR787129
EST:     ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCT                         GGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
genomic: ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCTgtatgtgtat ... tggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
EST: gi|76011416|gb|DT938586.1|DT938586
EST:     ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCT                         GGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
genomic: ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCTgtatgtgtat ... tggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
EST: gi|16918359|gb|BM073712.1|BM073712
EST:     ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCT                         GGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
genomic: ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCTgtatgtgtat ... tggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
EST: gi|211226520|gb|FL435621.1|FL435621
EST:     ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCT                         GGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
genomic: ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCTgtatgtgtat ... tggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
EST: gi|91054196|gb|EB164614.1|EB164614
EST:     ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCT                         GGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
genomic: ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCTgtatgtgtat ... tggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
EST: gi|91056577|gb|EB166995.1|EB166995
EST:     ATGCTGTTCGTTTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCT                         GGTTATGGTTCCTTTCTACTTCGAGATTTACCATTTGATGCCATCCAGTTC
genomic: ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCTgtatgtgtat ... tggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
EST: gi|33092443|gb|CF052437.1|CF052437
EST:     GCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCT                         GGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
genomic: GCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCTgtatgtgtat ... tggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
EST: gi|78083391|gb|DV511784.1|DV511784
EST:     ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCT                         GGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
genomic: ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCTgtatgtgtat ... tggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
EST: gi|60342707|gb|DN209680.1|DN209680
EST:     ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCT                         GGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
genomic: ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCTgtatgtgtat ... tggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
EST: gi|67018887|gb|CO447636.1|CO447636
EST:     ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCT                         GGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC
genomic: ATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCTgtatgtgtat ... tggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaaatatatcttgtgataatatccattatatcaccggtttcttttggtttgtagGGTTATGGTTCCTTTCTACTTCGAGATCTACCATTTGATGCCATCCAGTTCTGCATTTATGAGCAACTTCGAATTGGCTACAAACTTGTG
                                      tttctttt  CT-rich tract
                ataatatccattatat  TA-rich tract