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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgattcatgctttcgatgtacctcacagatctcagttgcctccatattaattgtaccagccatttttatgtgaaagggagacgtttttctactatattgtcaatcataacagccattattttcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTCCGAAAGTTTTATCCATGAACTGGATGAGAAG

Basic information

species Zea mays
transcript GRMZM2G034083_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G034083_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os12g37870.1 (Oryza sativa), 3'ss of exon 5
gtatgattcatgctttcgatgtacctcacagatctcagttgcctccatattaattgtaccagccatttttatgtgaaagggagacgtttttctactatattgtcaatcataacagccattattttcatg-tacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTCCGAAAGTTTTATCCATGAACTGGATGAGAAG
                                      |          ||  || | | |||     |  |||  |    |  | |||  | |      ||    ||||   | |||    || ||||  | |||||||| || |||  ||| || || || || |||||||| ||||| ||||| ||||| ||||||||||||||||||||||||
-----------------------------------gtatgattcaggcttttttttttctagcttacatagtgtccagttcaatcctttcacca------tgcttgtcatgctaaccagagcttccatggcatagGTGGGGAAACATTCAGTTCCCTCTGCCTTTCGGAAGAGTCCTCAGCCCCTCTGAAAGCTTTATCCATGAACTGGATGAGAAG

upper sequence: GRMZM2G034083_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv14s0060g00550.t01 (Vitis vinifera), 3'ss of exon 6
gtatgattcatgctttcgatgtacctcacagatctcagttgc-ctccatattaattgtaccagccatttttatgtgaaagggagacgtttttctactatattgtcaatcataacagccattattttcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTCCGAAAGTTTTATCCATGAACTGGATGAGAAG
                             | | ||  |||   ||  | | || |     |||  ||||| |  |       | |   |||   | | | || || ||          ||| || |  |  |||||||||||||||||| |||||| || || ||||||||||| || || ||| | ||  | |  || ||     ||||||| |||
---------------------------gtatacctttgttattctgaaaaatactcaagtcagaaattttcagttact----acatactttcagagtgtcttatctata--------tattgttatgcta-acagGTGGGGCAATATTGAGTTTCCGCTGCCTTTTGGAAGAGTACTAAGCCCCACAGAGGGCTACATTCACTCGTTGGATGAAAAG
















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|32848515|gb|CD988196.1|CD988196
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|67023264|gb|CO452013.1|CO452013
EST:     GAGAGGTGAACTAGATGACACAGCTGCTTTCACAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|31357444|gb|CD441801.1|CD441801
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|13150055|gb|BG320377.1|BG320377
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|148986293|gb|EE030028.2|EE030028
EST:     ATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTNCA-TAA                         GTGGGGCAATATTG
genomic: ATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTT-CAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTG
EST: gi|211020101|gb|FL063974.1|FL063974
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|18964714|gb|BM661164.1|BM661164
EST:     TTCAAAAACTTCAAT-A                         GTGGGGCAATA-TGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: TTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|60353107|gb|DN220080.1|DN220080
EST:     GACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAACATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|18964715|gb|BM661165.1|BM661165
EST:     GATATGAGAGGAGAACTAGATGACNCAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|22490798|gb|BU050721.1|BU050721
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|67025367|gb|CO454116.1|CO454116
EST:     CTAGATGACTCCCCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: CTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|7238111|gb|AW573333.1|AW573333
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAACATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|44901489|gb|CK828034.1|CK828034
EST:     AGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAACA-TGTTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCT
genomic: AGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTG-TGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCT
EST: gi|31356652|gb|CD441009.1|CD441009
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|19058295|gb|BM736962.1|BM736962
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAACCTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|78103680|gb|DV522108.1|DV522108
EST:     ATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: ATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|31353311|gb|CD437668.1|CD437668
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|13150060|gb|BG320382.1|BG320382
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|31355046|gb|CD439403.1|CD439403
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATT
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATT
EST: gi|31354936|gb|CD439293.1|CD439293
EST:     GATCTTAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTTCCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|19057819|gb|BM736486.1|BM736486
EST:     CTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: CTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|87151765|gb|DY396554.1|DY396554
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|67042517|gb|CO468772.1|CO468772
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAACATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|32859101|gb|CD998782.1|CD998782
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|148955951|gb|EC901669.2|EC901669
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAA-CTTCAATAA                         GTGGGGCAATATT
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATT
EST: gi|33104123|gb|CF064083.1|CF064083
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|37401585|gb|CF638160.1|CF638160
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAACATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
EST: gi|67016541|gb|CO445290.1|CO445290
EST:     GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAA                         GTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC
genomic: GATATGAGAGGAGAACTAGATGACACAGCTGCTTTCAAAAACTTCAATAAgtatgattca ... tcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggagacgtttttctactatattgtcaatcataacagccattattttcatgtacagGTGGGGCAATATTGTGTTTCCCCTACCATTTGGAAGAGTTCTCAGTCCCTCCGAAAGTTTTATCCATGAACTGGATGAGAAG
                           tcataac  putative branch site (score: 2)
                                       ttattttc  putative PPT
       tttttctactatatt  TA-rich tract