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

GCTAAGgtatttttctctttccctctactctggtcaatttccctagttcatctaaataaaattttcaggcagattttaccattcatttgagctggacactaacaaaaaaaattgttatccatgtgcag

Basic information

species Zea mays
transcript GRMZM2G067476_T01
intron # 5
splice site 5'
intron type U2

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|18181378|gb|BM382588.1|BM382588
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18172871|gb|BM348259.1|BM348259
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18167113|gb|BM336952.1|BM336952
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|16926595|gb|BM079663.1|BM079663
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|15053687|gb|BI359232.1|BI359232
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|17932024|gb|BM268984.1|BM268984
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|78105566|gb|DV523984.1|DV523984
EST:     AAGAAGTTTGATTGGGTTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|31357834|gb|CD442191.1|CD442191
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|148973350|gb|EE024440.2|EE024440
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18163508|gb|BM333347.1|BM333347
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|60400336|gb|DN233143.1|DN233143
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|51592511|gb|CV071657.1|CV071657
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18168234|gb|BM338074.1|BM338074
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18176005|gb|BM351115.1|BM351115
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|101397131|gb|EB820489.1|EB820489
EST:     AAGAAGTTTGAATGGGTTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|5108408|gb|AI740121.1|AI740121
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|50331163|gb|CO526289.1|CO526289
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|22819811|gb|BU499901.1|BU499901
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|13381706|gb|BG458261.1|BG458261
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18161892|gb|BM331731.1|BM331731
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|17929925|gb|BM266885.1|BM266885
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18162749|gb|BM332588.1|BM332588
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18173671|gb|BM349059.1|BM349059
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|89249775|gb|DY621561.1|DY621561
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18176508|gb|BM351441.1|BM351441
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18172256|gb|BM347644.1|BM347644
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18173129|gb|BM348517.1|BM348517
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|78081514|gb|DV509926.1|DV509926
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|28985718|gb|CB350781.1|CB350781
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|78081882|gb|DV510294.1|DV510294
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|16378806|gb|BI992621.1|BI992621
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|6742602|gb|AW313417.1|AW313417
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18168815|gb|BM338655.1|BM338655
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18168659|gb|BM338499.1|BM338499
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|7135836|gb|AW498291.1|AW498291
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|78025862|gb|DV494249.1|DV494249
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18167604|gb|BM337444.1|BM337444
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|28986044|gb|CB350941.1|CB350941
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18174386|gb|BM349774.1|BM349774
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18164000|gb|BM333839.1|BM333839
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|50334314|gb|CO529440.1|CO529440
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18170719|gb|BM340559.1|BM340559
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|14244099|gb|BG841759.2|BG841759
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18174175|gb|BM349563.1|BM349563
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|15426866|gb|BI542688.1|BI542688
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18171772|gb|BM341612.1|BM341612
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|78026101|gb|DV494488.1|DV494488
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18173140|gb|BM348528.1|BM348528
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18172051|gb|BM347439.1|BM347439
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|17931731|gb|BM268691.1|BM268691
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18162934|gb|BM332773.1|BM332773
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|17930674|gb|BM267634.1|BM267634
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|15053686|gb|BI359231.1|BI359231
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|17930017|gb|BM266977.1|BM266977
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|110524573|gb|EE028757.1|EE028757
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18165958|gb|BM335797.1|BM335797
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|37391749|gb|CF633118.1|CF633118
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18163404|gb|BM333243.1|BM333243
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|148963283|gb|EE014273.2|EE014273
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|211489309|gb|FL450049.1|FL450049
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|32859855|gb|CD999536.1|CD999536
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG
EST: gi|18171008|gb|BM340848.1|BM340848
EST:     AAGAAGTTTGAATGGGCTAAG
genomic: AAGAAGTTTGAATGGGCTAAG

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: 49 (upstream exon), 49 (downstream exon)
Score: 260

GCTAAGgtatttttct ... ccatgtgcagAGGCTTGTGATGAAATACGGGTCACTTGTGTCTGTTGTCTCTTTTGTTGGACTGTTTATCTACCTTGTCGCGAGCCCGTCGAAGAGCAGCTCAAAGGCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 410

GCTAAGgtatttttct ... ccatgtgcagAGGCTTGTGATGAAATACGGGTCACTTGTGTCTGTTGTCTCTTTTGTTGGACTGTTTATCTACCTTGTCGCGAGCCCGTCGAAGAGCAGCTCAAAGGCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 356

GCTAAGgtatttttct ... ccatgtgcagAGGCTTGTGATGAAATACGGGTCACTTGTGTCTGTTGTCTCTTTTGTTGGACTGTTTATCTACCTTGTCGCGAGCCCGTCGAAGAGCAGCTCAAAGGCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 345

GCTAAGgtatttttct ... ccatgtgcagAGGCTTGTGATGAAATACGGGTCACTTGTGTCTGTTGTCTCTTTTGTTGGACTGTTTATCTACCTTGTCGCGAGCCCGTCGAAGAGCAGCTCAAAGGCAA