Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggttcttctgatcactcaaatgtctatttttatgtatacactaagtttcacatggttgtatcattggatttatgatcttactgttccttttgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG

Basic information

species Zea mays
transcript GRMZM2G013600_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G013600_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g38960.1 (Oryza sativa), 3'ss of exon 1
-ggttcttctgatcactcaaatgtctatttttatgtatacact--aagtttcacatggttgtatcattggatttatgatcttactgttccttttgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
       | ||||  || ||      ||| |||| | |    |  |||  |    | |||| || ||||  |||   ||   | |||   ||||  | | ||| |||||||||||||| ||||||||||||||||||
acaactatatgattgctgaagcactgattgttatatgtcattttaaaggattgttttgttggat-attgattttggaatggcattgta--ttttcctctgcagGTATGAGGATGAGCCACCAGAACCTGAGATTGAG
















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|211199640|gb|FL066446.1|FL066446
EST:     GGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: GGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211199633|gb|FL066439.1|FL066439
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211199631|gb|FL066437.1|FL066437
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211133103|gb|FL066425.1|FL066425
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211202196|gb|FL066454.1|FL066454
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACNACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211204764|gb|FL066465.1|FL066465
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|149071159|gb|EE159556.2|EE159556
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211133109|gb|FL066431.1|FL066431
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211199637|gb|FL066443.1|FL066443
EST:     CGCGCGGGCGGA--SATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|148979713|gb|EE026786.2|EE026786
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|15426720|gb|BI542542.1|BI542542
EST:     CGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCGAGAACCTNGAGATTGAG
genomic: CGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCC-AGAACCT-GAGATTGAG
EST: gi|15426730|gb|BI542552.1|BI542552
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|78107711|gb|DV526129.1|DV526129
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211132168|gb|FL066405.1|FL066405
EST:     CGCGCGGGCGGA--SATGGC-GACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|60397946|gb|DN230762.1|DN230762
EST:     CATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211132182|gb|FL066419.1|FL066419
EST:     CGCGCGGGCGGA--SATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|60399144|gb|DN231958.1|DN231958
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|32908904|gb|CF013717.1|CF013717
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211133098|gb|FL066420.1|FL066420
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|78107710|gb|DV526128.1|DV526128
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211202197|gb|FL066455.1|FL066455
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|71764952|gb|DR962889.1|DR962889
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|6636953|gb|AW261225.1|AW261225
EST:     TGCGCGGGCGGAGTCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211132176|gb|FL066413.1|FL066413
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211133100|gb|FL066422.1|FL066422
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAC
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211202193|gb|FL066451.1|FL066451
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211199630|gb|FL066436.1|FL066436
EST:     GCGCGGGCGGA--CATGGCGGAACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: GCGCGGGCGGAGCCATGGCGG-ACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211131245|gb|FL066397.1|FL066397
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211133104|gb|FL066426.1|FL066426
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|60352879|gb|DN219852.1|DN219852
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211204765|gb|FL066466.1|FL066466
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211202206|gb|FL066464.1|FL066464
EST:     GCGCGGGCGGA--CATTGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGATCCTCCAGAACCTGAGATTGAG
genomic: GCGCGGGCGGAGCCA-TGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|60357727|gb|DN224700.1|DN224700
EST:     GAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: GAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|93017559|gb|EB643079.1|EB643079
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211502196|gb|FK951723.1|FK951723
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|60396800|gb|DN229628.1|DN229628
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|149102013|gb|EE287504.2|EE287504
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211131249|gb|FL066401.1|FL066401
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|74235059|gb|DT642973.1|DT642973
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|84977260|gb|DW475682.1|DW475682
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211199639|gb|FL066445.1|FL066445
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|149086215|gb|EE175755.2|EE175755
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211502195|gb|FK951722.1|FK951722
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211202192|gb|FL066450.1|FL066450
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211199641|gb|FL066447.1|FL066447
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211199629|gb|FL066435.1|FL066435
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATCAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|32855906|gb|CD995587.1|CD995587
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211133102|gb|FL066424.1|FL066424
EST:     TGGC-GACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: TGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|15426767|gb|BI542589.1|BI542589
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211132177|gb|FL066414.1|FL066414
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211132173|gb|FL066410.1|FL066410
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211132170|gb|FL066407.1|FL066407
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211377054|gb|FK951720.1|FK951720
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|149071158|gb|EE159555.2|EE159555
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|37426097|gb|CF650799.1|CF650799
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211199634|gb|FL066440.1|FL066440
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATCAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|71764951|gb|DR962888.1|DR962888
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
EST: gi|211377055|gb|FK951721.1|FK951721
EST:     CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGG                         CTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
genomic: CGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 468

GCAGCCGCAAGCCAAAACCCTAGCAAGCAAACCACCGGAGCAGCGGCGCTCGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 263

GCAGCCGCAAGCCAAAACCCTAGCAAGCAAACCACCGGAGCAGCGGCGCTCGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 308

GCAGCCGCAAGCCAAAACCCTAGCAAGCAAACCACCGGAGCAGCGGCGCTCGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG


Block sizes: 47 (upstream exon), 48 (downstream exon)
Score: 189

GCAGCCGCAAGCCAAAACCCTAGCAAGCAAACCACCGGAGCAGCGGCGCTCGCGCGGGCGGAGCCATGGCGGACGACGATTACAACGAAATCGACATGGGgttcgactct ... tgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcacatggttgtatcattggatttatgatcttactgttccttttgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG
                             atcttac  putative branch site (score: 189)
                              tcttactgttcctttt  CT-rich tract
                                          ttttgttata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggttcttctgatcactcaaatgtctatttttatgtatacactaagtttcacatggttgtatcattggatttatgatcttactgttccttttgttatacagCTATGAGGATGAGCCTCCAGAACCTGAGATTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG