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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgtcaatggcatttggtttgcagtgatttaatttacagccgagaatcatcggttttaccaaacaccaacgcaccacgtacgtgcgcttctgcttctgctgctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGTGCAGAACCCCACCGAAGATGACCTCAAGTTCTTCTACGACGGGCAAGGC

Basic information

species Zea mays
transcript GRMZM2G152477_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G152477_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g13540.1 (Oryza sativa), 3'ss of exon 6
gttagtgtcaat-ggcatttggtttgcagtgatttaatttacagccg---agaatcatcggttttaccaaacaccaacgcaccacgt---acgtgcgcttctgcttctgctgctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGTGCAGAACCCCACCGAAGATGACCTCAAGTTCTTCTACGACGGGCAAGGC
||||   ||| | | ||    |||| |  |  ||||  | ||||      ||||  |    | ||  || | | | | | | |  ||   || ||      |||  || ||  || | ||| || ||||| ||||||||||| ||||| ||||| || ||||||||||||||   | | || |     ||| | ||| ||||||| ||||| || ||||| 
gttaacatcatttgacacaaagtttccgct--tttatgtcacagtaatatagaacaaaacatgtttgcata-atcgatgaaacttgtctaacctgaatgcatgca-ctcctattgttacagTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGAGTCTTGCAGCCAAATTCTGATAAGCTCCAGTTCTTTTACGATGGACAAGGG
















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|37388405|gb|CF631411.1|CF631411
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|148966045|gb|EE016979.2|EE016979
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|78075832|gb|DV504266.1|DV504266
EST:     ACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: ACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|16927228|gb|BM080297.1|BM080297
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|32845008|gb|CD984689.1|CD984689
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGT
EST: gi|149107110|gb|EE189000.2|EE189000
EST:     CTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: CTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|32845140|gb|CD984821.1|CD984821
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTA
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTA
EST: gi|211405855|gb|FK952122.1|FK952122
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|60349280|gb|DN216253.1|DN216253
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|32844554|gb|CD984235.1|CD984235
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGT
EST: gi|50335509|gb|CO530635.1|CO530635
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|78114010|gb|DV532399.1|DV532399
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|32844045|gb|CD983726.1|CD983726
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGT
EST: gi|37393857|gb|CF634195.1|CF634195
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|71430080|gb|DR811130.1|DR811130
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|76012839|gb|DT940009.1|DT940009
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|211405854|gb|FK952121.1|FK952121
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGC-GTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|32835913|gb|CD975591.1|CD975591
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACGTCAGCAGCAGAGACAG                         CCCAATCCAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGT
EST: gi|18162089|gb|BM331928.1|BM331928
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|101387886|gb|EB815958.1|EB815958
EST:     CAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: CAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|110940413|gb|EE160570.1|EE160570
EST:     GAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: GAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|71767916|gb|DR965853.1|DR965853
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|76289548|gb|DV029116.1|DV029116
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|44900102|gb|CK826647.1|CK826647
EST:     TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGTGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
EST: gi|211405853|gb|FK952120.1|FK952120
EST:     TACATCAACCTTCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAG                         CCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT
genomic: TACATCAACGGGCATGACCACTGCCTGGAACACATCAGCAGCAGAGACAGgttagtgtca ... gctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGT

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtgtcaatggcatttggtttgcagtgatttaatttacagccgagaatcatcggttttaccaaacaccaacgcaccacgtacgtgcgcttctgcttctgctgctgctgcagCCCAATCCAGTACTTCACAAGCGGAGGCGGTTCCAAGGCATGGAGAGGAGTGCAGAACCCCACCGAAGATGACCTCAAGTTCTTCTACGACGGGCAAGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG