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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttattttctctcttgaggcttgaagaccatcttaaccttttgaactttacatgtaggtggagaagactgagatcttatttattttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGTGCGGTTGCTCATCACACTGACTGCACCTTCATCAGGGTGTCTGGTTCTG

Basic information

species Zea mays
transcript GRMZM2G137528_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g11050.1 (Oryza sativa), 3'ss of exon 4
gtttattttctctcttgaggcttgaagaccatcttaa-ccttttgaactttacatgtaggtggagaagactgagatcttatttattttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGTGCGGTTGCTCATCACACTGACTGCACCTTCATCAGGGTGTCTGGTTCTG
     |||   ||  | |      || | |||||||| |  |   |  ||||  | |  |  || || | | |       | | ||||||||||||||||| || ||||| ||||||||||||||||| |||||| |||||||||| |||||||||||||||||||||||||||||||||||||||||||| |
----gtttgaacttcttaac----aatatcatcttaaacgatcctatttttaagtattagcagaaaatattaac------tctcttttttcagGGTGTCCTTCTCTATGGCCCTCCAGGCACAGGAAAAACATTGTTGGCACGTGCAGTTGCTCATCACACTGACTGCACCTTCATCAGGGTGTCTGGTTCCG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA08G24000.1 (Glycine max), 3'ss of exon 4
gtttattttctctcttgaggcttgaagaccatcttaaccttttgaactttacatgtaggtggagaag---------actgagatcttatttattttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGTGCGGTTGCTCATCACACTGACTGCACCTTCATCAGGGTGTCTGGTTCTG
   || | |||   ||  || |||  |   |  ||   | ||  | |   |||  | | ||  ||            ||||     |   |    |  ||||||||||| || ||||| || || || |||||||| |||||| ||||  | || || |||||||| |||||||| || ||||||||||||||||||||||
--gtagtgtctgattttggggttgttgctaaattttgtcattccatcagcacacttggttgttgatttttctgtttgctgaatctcttgatcacatcacagGGTGTCCTGCTCTATGGGCCACCTGGTACAGGAAAAACATTGTTGGCTAGGGCAGTGGCTCATCATACTGACTGTACATTCATCAGGGTGTCTGGTTCTG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA07G00420.1 (Glycine max), 3'ss of exon 4
gtttattttctctcttgaggcttgaagaccatcttaaccttttgaactttacatgtaggtggagaagactgagat--cttatttattt-------tttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGTGCGGTTGCTCATCACACTGACTGCACCTTCATCAGGGTGTCTGGTTCTG
||   || ||  | | | |  |||   |   |  | |     | | |   |||  | | ||   |    |  | |  || | |   ||       |  ||||||||||| || ||||| || || || ||||| || |||||| ||||  | || || |||||||| |||||||| || ||||||||||||||||||||||
gtagtttctcattttggggtgttgctaaattttgtcattccatcagcagcacacttggttgtttatttttctgtttgctgagtctcttgaacacatcacagGGTGTCCTGCTCTATGGGCCACCTGGTACAGGTAAAACATTGTTGGCTAGGGCAGTGGCTCATCATACTGACTGTACATTCATCAGGGTGTCTGGTTCTG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv09s0002g05800.t01 (Vitis vinifera), 3'ss of exon 4
gtttattttctctcttgaggcttgaagaccatcttaaccttttgaactttacatgtaggtggagaagactgagatcttatttattttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGTGCGGTTGCTCATCACACTGACTGCACCTTCATCAGGGTGTCTGGTTCTG
          |   || ||   |         ||  | |||  | |   ||    |   |  |   || |  |||    ||  || |  ||||| ||||| || ||||| || || || ||||| || || ||||| ||| | || || |||||||| |||||||| || ||||||||||| ||||||||||
---------gtagttttagttgtagtattttgctggagcttaagtatcataagcttttattaatttgattttgat----ttctttataacagGGAGTCCTGCTGTATGGGCCACCTGGTACAGGGAAAACTTTGCTTGCAAGGGCAGTAGCTCATCATACTGACTGTACTTTCATCAGGGTTTCTGGTTCTG

upper sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv04s0008g04690.t01 (Vitis vinifera), 3'ss of exon 4
gtttattttctctcttgaggcttgaagaccatcttaaccttttgaactttacatgtaggtggagaagactgagatcttat---ttattttttc--------agGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGTGCGGTTGCTCATCACACTGACTGCACCTTCATCAGGGTGTCTGGTTCTG
  |||||| |||  | |   |||  |     | | |     |  |||| |   || | ||    || |||  | ||| ||    |||||||          |||| ||||| |||||||| ||||| || ||||| || ||| | || ||| | || || ||||||||||||||||| ||||| || ||||| ||||| ||||
-gttatttcctccatagcaacttctaatttgtttgactagctgcaactgtt--tggaagtcattaaaactcggttctaatagtctatttttatgtgttaatagGGAGTCCTGCTTTATGGTCCTCCTGGTACAGGGAAAACACTTCTTGCAAGGGCAGTGGCTCATCACACTGACTGTACCTTTATAAGGGTTTCTGGCTCTG

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|32941875|gb|CF046694.1|CF046694
EST:     CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG                         GGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
genomic: CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAGgtttattttc ... attttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
EST: gi|6989624|gb|AW447837.1|AW447837
EST:     CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCACAACCAAAG                         GGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
genomic: CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAGgtttattttc ... attttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
EST: gi|19350715|gb|BM895247.1|BM895247
EST:     CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG                         GGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
genomic: CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAGgtttattttc ... attttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
EST: gi|211070411|gb|FL012986.1|FL012986
EST:     CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG                         GGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
genomic: CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAGgtttattttc ... attttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
EST: gi|67024358|gb|CO453107.1|CO453107
EST:     CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG                         GGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
genomic: CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAGgtttattttc ... attttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
EST: gi|19350732|gb|BM895264.1|BM895264
EST:     CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG                         GGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
genomic: CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAGgtttattttc ... attttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
EST: gi|60395128|gb|DN227997.1|DN227997
EST:     CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG                         GGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
genomic: CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAGgtttattttc ... attttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
EST: gi|60352642|gb|DN219615.1|DN219615
EST:     ATTGCCC-ACCAAAG                         GGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
genomic: ATTGCCCAACCAAAGgtttattttc ... attttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
EST: gi|32866277|gb|CF005959.1|CF005959
EST:     CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG                         GGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
genomic: CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAGgtttattttc ... attttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
EST: gi|32933070|gb|CF037882.1|CF037882
EST:     CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAG                         GGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT
genomic: CAATCAAACATCCGGAACTATTTGAGAGCCTTGGAATTGCCCAACCAAAGgtttattttc ... attttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttttgaactttacatgtaggtggagaagactgagatcttatttattttttcagGGTGTCCTCCTTTATGGACCTCCAGGCACAGGAAAGACATTGCTGGCACGTGCGGTTGCTCATCACACTGACTGCACCTTCATCAGGGTGTCTGGTTCTG
                                     tcttatttattttttc  CT-rich tract
                                  agatcttatttatttt  TA-rich tract