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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTCGGGGAAGACAACCATCGTTCTCAAGATCAATGGGGAGGACACCAGCATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccccattccttccactgcctagtttagtccagtttggctccgatgcatttgcacagtgacatatagttacttgatttagagtggagttttatg...

Basic information

species Zea mays
transcript GRMZM2G154890_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G154890_T03 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os02g22140.1 (Oryza sativa), 5'ss of exon 3
ACTCGGGGAAGACAACCATCGTTCTCAAGATCAATGGGGAGGACACCAGCATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccccatt--ccttccactgcctagtttagtccagtttggctccgatgca--tttgcacagtgacatatagttacttgatttagagtggagttttatg
||||||||||||| || ||||| |||||||||||||||||||| ||| || |||| ||||| ||||| || ||||||||||||||||||||||||||||||||||   |||||    | ||  ||| |    ||| | | |  |   |  |||| |   ||||     |  |  |  ||  || || |  | ||  |       
ACTCGGGGAAGACGACGATCGTGCTCAAGATCAATGGGGAGGATACCGGCGTCATCAGCCCCACCCTCGGCTTCAACATCAAGACCATCAAGTACCACAAgtatgagtcccatcggtcctcttctgtcgctcttactgctgcattattatgatgtaaacttgctttcggtaaggtgattttttcatgtgaaatgatgggc----
















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|91874746|gb|EB404703.1|EB404703
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|60337602|gb|DN204575.1|DN204575
EST:     GTCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|60358498|gb|DN225471.1|DN225471
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|78112616|gb|DV531010.1|DV531010
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|60345034|gb|DN212007.1|DN212007
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|76016498|gb|DT943668.1|DT943668
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|71318964|gb|DR796231.1|DR796231
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCA
EST: gi|5932640|gb|AW057001.1|AW057001
EST:     GTCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|60345576|gb|DN212549.1|DN212549
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|78082479|gb|DV510891.1|DV510891
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|211102305|gb|FL158952.1|FL158952
EST:     GTCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGA
EST: gi|91874745|gb|EB404702.1|EB404702
EST:     CAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: CAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|50335743|gb|CO530869.1|CO530869
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|76016499|gb|DT943669.1|DT943669
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|78114766|gb|DV533154.1|DV533154
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|60336929|gb|DN203902.1|DN203902
EST:     GCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: GCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|34391377|gb|CF384605.1|CF384605
EST:     GTCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|19351517|gb|BM896049.1|BM896049
EST:     CCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: CCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|78112615|gb|DV531009.1|DV531009
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|78114767|gb|DV533155.1|DV533155
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|74239326|gb|DT647240.1|DT647240
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|89755818|gb|DY686096.1|DY686096
EST:     TCATTAGCCCAACCCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGGTGGGAGGACAGAAGACAATCAGGTCTT
genomic: TCATTAGCCCAACCC-TTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGG-AGGACAGAAGACAATCAGGTCTT
EST: gi|86469538|gb|DY235908.1|DY235908
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|60339777|gb|DN206750.1|DN206750
EST:     CCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: CCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|71318962|gb|DR796230.1|DR796230
EST:     TAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGTTCTTA
genomic: TAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
EST: gi|76286526|gb|DV026094.1|DV026094
EST:     ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAA                         ATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA
genomic: ATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccc ... attatcatagATACTCTTTGAACATATGGGATGTTGGAGGACAGAAGACAATCAGGTCTTA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACTCGGGGAAGACAACCATCGTTCTCAAGATCAATGGGGAGGACACCAGCATCATTAGCCCAACCCTTGGATTCAACATCAAGACCATCAAGTACCACAAgtatgttccccattccttccactgcctagtttagtccagtttggctccgatgcatttgcacagtgacatatagttacttgatttagagtggagttttatg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttccac