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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtaatcttggtttgacgtgtttgtggttccatcatttcatatgactgccctacgtctggcaatccatttgtaacatttctgctttgtttttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTTTCGTGGGTCCAGCCCAGAGTGCTTGGAATCCCACAGGTTAAGGCTTTGC

Basic information

species Zea mays
transcript GRMZM2G083076_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G083076_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g11570.1 (Oryza sativa), 3'ss of exon 5
tgtaatcttggtttgacgtgtttgtggttccatcattt--catatgactgccctacgtctggcaatccatttgtaacatttctgctttgtttttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTTTCGTGGGTCCAGCCCAGAGTGCTTGGAATCCCACAGGTTAAGGCTTTGC
 | |  || |||      | |   ||   |||||| ||  ||||  | |          | | |||      | |  |||  || ||      |   |||||||||||||||| ||||| ||||||||||| |||||||| |||||||| || || ||||||||||| ||||| |||||||| |||||||| ||||| ||||
-ggagcctgggtgctgtatttccatgaggccatcaattgccatacaatttaaaagtaaattggaatatgagagaattattaatgattcccccattt-tgcagGTTCATCTTATAGAGGGGATAATTGATGAGGTGGACAGCACAGTTCACGTGTCATGGGTCCAGCCTAGAGTACTTGGAATTCCACAGGTGAAGGCGTTGC

upper sequence: GRMZM2G083076_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g32800.2 (Oryza sativa), 3'ss of exon 5
------tgtaatcttggtttgacgtgtttgtggttccatcatttcatatgactgccctacgtctggcaatccatttgtaacatttctgctttgtttttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTTTCGTGGGTCCAGCCCAGAGTGCTTGGAATCCCACAGGTTAAGGCTTTGC
         | ||||   |||          ||     |||  |  |   | |    || ||| |  | |  ||  |   |     ||| || || |  | |||||||||||||||| || || ||||||||||| |||||||| |||||||| || || ||||||||||| ||||| |||||||| |||||||| ||||| ||||
atgctagaaagtcttacattgtgaaacggagggagtagtcaaatattgaaattatttta-gtc-gctagtgtatcagctgc---catgcatt-ttctccactgcagGTTCATCTTATAGAAGGGATAATTGATGAGGTGGACAGCACAGTTCACGTGTCATGGGTCCAGCCTAGAGTACTTGGAATTCCACAGGTGAAGGCCTTGC

upper sequence: GRMZM2G083076_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g32800.1 (Oryza sativa), 3'ss of exon 5
-----------------------------tgtaatcttggtttgacgtgt-ttgtggttccatcatttcatatgactgccctacgtctggcaatc-catttgtaacatttctgctttgttttt--aaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTTTCGTGGGTCCAGCCCAGAGTGCTTGGAATCCCACAGGTTAAGGCTTTGC
                              | |||  | |   | | |   |||||   |         |    | |     |  | |   | || |   |||| ||  |    |   ||||    | |||||||||||||||| || || ||||||||||| |||||||| |||||||| || || ||||||||||| |                                 
ctagattcattagcatctatatgaatgtgggcaatgctagaaagtcttacattgtgaaacggagggagtagtcaaatattgaaattattttagtcgctagTGTATCAGCTGCCATGCATTTTCTCCACTGCAGGTTCATCTTATAGAAGGGATAATTGATGAGGTGGACAGCACAGTTCACGTGTCATGGGTCCAGCCTA---------------------------------

upper sequence: GRMZM2G083076_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA09G34310.1 (Glycine max), 3'ss of exon 5
tgtaatcttggtttgacgtgtttgtggttccatcatttcatatgactgccctacgtctggcaatccatttgtaacatttctgctttgt---------ttttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTTTCGTGGGTCCAGCCCAGAGTGCTTGGAATCCCACAGGTTAAGGCTTTGC
     | |||  |    |  |||| |         |||  | | | ||    | |   | |||  |  |  ||| ||||  |  ||||          ||| | | ||||||||||| |||||||| ||||||||| |||| ||  | ||||| |||||||| ||||| ||||| ||||| || || || | |||| | ||  | || |
-----ttttgaatatctgcatttgagaacttgatttttattgtcattg----aggctggacaacaccgtcttaaaatttaaggcttgtaactgaattcttttattacagGTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTGCATGTTTCCTGGGTGCAGCCAAGAGTTCTGGGTATTCAACAGATCAAATCCTTAC

upper sequence: GRMZM2G083076_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA01G01460.1 (Glycine max), 3'ss of exon 5
tgtaatctt-ggtttgacgtgtttgtggttccatcatttcatatgactgcc--ctacgtctggcaatccatttgtaacatttctgctttgtttttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTTTCGTGGGTCCAGCCCAGAGTGCTTGGAATCCCACAGGTTAAGGCTTTGC
| |  | || |  ||   |  |||| |         |||  | | | |     | || | |   |||  |    |   |  |    |   |||| || ||||||||||||| |||||||| ||||||||| |||| ||  | ||||| || ||||| ||||| ||||| ||||| || || || | |||| | ||  | || |
tatcttttttgaatttctgcatttgagaacttgagttttattgtcattcttaacaacattttaaaatttaaagcttgtaagtgaatt---ttttgaattgcagGTTCATCTAATTGAGGGTATAATTGATCAAGTTGAGGGCACAGTCCACGTTTCTTGGGTGCAGCCAAGAGTTCTGGGTATTCAACAGATCAAATCCTTAC

upper sequence: GRMZM2G083076_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv02s0012g02660.t01 (Vitis vinifera), 3'ss of exon 5
tgtaatc-ttggtttgacgtgtttgtggttccatcatttcatatgact--gccctacgtctggcaatccatttgtaacatttctgctttgtttttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTTTCGTGGGTCCAGCCCAGAGTGCTTGGAATCCCACAGGTTAAGGCTTTGC
 |||  |  | |||         | |  ||   |      ||   | |    | |  || |   |  |  |    |    ||     |||   |    |||||||||||||||||||||| || |||||| |||| ||  | ||||||||||| |||||||| ||||| |||||  | || || |||||| | ||  | ||||
-gtatccacttgttaagtagtcatttacttgttttgggaaatgcaattcaagcttttgtattaaaccctgtagacattggttaaaacttggact--gctgcagGTTCATCTTATTGAGGGCATCATTGATCAAGTTGAAGGGACAGTTCATGTGTCGTGGGTGCAGCCAAGAGTTTTGGGTATTCCACAGATCAAATCGTTGC

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|32944901|gb|CF049720.1|CF049720
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|211378395|gb|FL229425.1|FL229425
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|60342361|gb|DN209334.1|DN209334
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|78180907|gb|DV551280.1|DV551280
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|211188820|gb|FL462687.1|FL462687
EST:     CTTAGCTTTCAATCAGTGATGTGAAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|31997883|gb|CD661818.1|CD661818
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|211163793|gb|FL451880.1|FL451880
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|211378396|gb|FL229426.1|FL229426
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|149111477|gb|EE294981.2|EE294981
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|148943272|gb|EC888334.2|EC888334
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCTTCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|78103809|gb|DV522237.1|DV522237
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|60672250|gb|DN475016.1|DN475016
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|110942146|gb|EE162303.1|EE162303
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|8401221|gb|BE056855.1|BE056855
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|12047287|gb|BF729426.1|BF729426
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GGTCATCTTATTGAGGGAATAATTGATGAAGTG
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTG
EST: gi|8401231|gb|BE056865.1|BE056865
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|71325796|gb|DR799577.1|DR799577
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|211050666|gb|FL481059.1|FL481059
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCYCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|149015026|gb|EE044772.2|EE044772
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|116829258|gb|EC866181.1|EC866181
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|16377755|gb|BI992105.1|BI992105
EST:     CTCCTTATGAAGAGCCTCTCG                         GTTCTTCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|211378397|gb|FL229427.1|FL229427
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
EST: gi|37388271|gb|CF631343.1|CF631343
EST:     CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCG                         GTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT
genomic: CTAAGCTTTCAATCAGTGATGTGGAGTATCTCCTTATGAAGAGCCTCTCGgtaacttgat ... ttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgccctacgtctggcaatccatttgtaacatttctgctttgtttttaaatgcagGTTCATCTTATTGAGGGAATAATTGATGAAGTGGACAGTACAGTTCATGTTTCGTGGGTCCAGCCCAGAGTGCTTGGAATCCCACAGGTTAAGGCTTTGC
                       ttgtaac  putative branch site (score: 2)
                               tttctgctttgttttt  CT-rich tract
                                      tttgtttttaaat  TA-rich tract