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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttcctttgtggttccccttcatgacaataacctaatctttcatgtgatattatctatgaaacatgctttgcatcgagctagttcatagccttcctgaatccaatgattgaaattggcaaatgtgctctggagtagactgatatttaggggaacaattgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCACATGCAGTTCTCTGACGACGCAGAAGAAACTTTCTCCAGAGCAATTAGC

Basic information

species Zea mays
transcript GRMZM2G033526_T01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G033526_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os10g42100.1 (Oryza sativa), 3'ss of exon 10
gtgagttcctttgtggttccccttcatgacaataacctaatctttcatgtgatattatctatgaaacatgctttgcatcgagctagttcatagccttcctgaatccaatgattgaaattggcaaatgtgctctggagtagactgatattta--ggggaacaattgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCACATGCAGTTCTCTGACGACGCAGAAGAAACTTTCTCCAGAGCAATTAGC
|| ||||  |||  | || |     |     |   || |||||||  |    || | | |       |     |  ||| |  | ||  | |  ||   | |||  ||||||  || |||  |||  ||||||||||  ||||||   |||   || |||  |||||| |||||||||||||||||||| || |||||||||||||| ||  | || ||| ||||| |||| ||||| || ||||| ||||||||||| ||||||||||| 
gtaagttttttttggatttctacctacatgcaatgccaaatcttttttccc-tagtgttttcattttag----taaatcaattttgtaaacattctaaataaata-aatgataaaagttgaaaaagatgctctggag--gactgaccattatgaggaaactgttgttgcagGGAACGAGTGAAGCAACGTCTGGCACTCTACCAGGGTGTGGTTCCCATTTACATGAAGTTTTCTGATGATGCAGAGGAAACTTTCTCTAGAGCAATTAGT
















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|22133857|gb|BQ833942.1|BQ833942
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|6526771|gb|AW216050.1|AW216050
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|21759868|gb|BQ635409.1|BQ635409
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTCCAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60351363|gb|DN218336.1|DN218336
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60355665|gb|DN222638.1|DN222638
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|45567965|gb|CK985835.1|CK985835
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|13177888|gb|BG349071.1|BG349071
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|20802326|gb|BQ293376.1|BQ293376
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60355637|gb|DN222610.1|DN222610
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|32858382|gb|CD998063.1|CD998063
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTA
EST: gi|22542067|gb|BU092505.1|BU092505
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|24765370|gb|CA400529.1|CA400529
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60397119|gb|DN229938.1|DN229938
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60354896|gb|DN221869.1|DN221869
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60338482|gb|DN205455.1|DN205455
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|37418065|gb|CF646693.1|CF646693
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|31357830|gb|CD442187.1|CD442187
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|33467026|gb|CF244075.1|CF244075
EST:     ACACTA-TTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: ACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|213182699|gb|FM195337.1|FM195337
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|87155458|gb|DY400247.1|DY400247
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60341691|gb|DN208664.1|DN208664
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60356976|gb|DN223949.1|DN223949
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|78025170|gb|DV493557.1|DV493557
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|211275556|gb|FL192922.1|FL192922
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|67016939|gb|CO445688.1|CO445688
EST:     CTCCTGAGCCACTATCGTNCCTCGTCTACACTATTTGCATTTACCAACGA                         A
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtag-
EST: gi|67016939|gb|CO445688.1|CO445688
EST:     CTCCTGAGCCACTATCGTNCCTCGTCTACACTATTTGCATTTACCAACGA                         A
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtag-
EST: gi|60394678|gb|DN227548.1|DN227548
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60395622|gb|DN228492.1|DN228492
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|5739696|gb|AI947272.1|AI947272
EST:     CTCCTGAGCCACTATCGTCCCTCGTCTACACTATTTGCGTTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGGGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|4967114|gb|AI692056.1|AI692056
EST:     CGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|76287860|gb|DV027428.1|DV027428
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|60400092|gb|DN232899.1|DN232899
EST:     CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: CTCCTGAGCCATTATCGTCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
EST: gi|148929002|gb|EC874192.2|EC874192
EST:     TCCCTCGTCTCCACTATTTGCATTTACAAACGA                         GGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA
genomic: TCCCTCGTCTACACTATTTGCATTTACAAACGAgtgagttcct ... attgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattggcaaatgtgctctggagtagactgatatttaggggaacaattgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCACATGCAGTTCTCTGACGACGCAGAAGAAACTTTCTCCAGAGCAATTAGC
                         gactgat  putative branch site (score: 3)
                            tgatattta  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagttcctttgtggttccccttcatgacaataacctaatctttcatgtgatattatctatgaaacatgctttgcatcgagctagttcatagccttcctgaatccaatgattgaaattggcaaatgtgctctggagtagactgatatttaggggaacaattgttgtagGGAACGAGTGAAGCAACGGCTAGCACTCTACCAGGGCGTCATCCCTATTCACATGCAGTTCTCTGACGACGCAGAAGAAACTTTCTCCAGAGCAATTAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA