Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCAGATGGTTCATTCTTTTTGCTTCATGCATGTGCTCATAATCCCACCGGTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaactgaactggggaacaaaaaagttgtatttcctgtgatcctacaagccacacctaccagatttcactcttgttcctctatag

Basic information

species Zea mays
transcript GRMZM2G146677_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G146677_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g14110.1 (Oryza sativa), 5'ss of exon 5
TCCAGATGGTTCATTCTTTTTGCTTCATGCATGTGCTCATAATCCCACCGGTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaactgaactggggaacaaaaaagttgtatttcctgtgatcctacaagccacacctaccagatttcactcttgttcctctatag
|||| ||||||||||||||||||||||||| ||||| |||||||| || || || |||||||| || |||||||||||||| |||||| | || |||||||||   | |           ||| |  |  |   | ||    ||| |   || | | |||  || || ||||  ||  |||   |  | ||
TCCAAATGGTTCATTCTTTTTGCTTCATGCTTGTGCCCATAATCCTACTGGAGTTGATCCTACAGAAGAACAATGGAGAGAGATATCCTACCAATTCAAGgtagcagaagt---------gaaaaggactggctttttgttggtgttatcaccaacgacagatatcacattttccttatgtgttttgacag

upper sequence: GRMZM2G146677_T01 (Zea mays), 5'ss of exon 5
lower sequence: GLYMA06G42830.1 (Glycine max), 5'ss of exon 5
TCCAGATGGTTCATTCTTTTTGCTTCATGCATGTGCTCATAATCCCACCGGTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaactgaactggggaacaaaaaagttgtatttcctgtgatcctacaagccacaccta----ccagatttcactcttgttcctctatag-----
|||||||||||| |||||| |||||||||| |||||||||||||| || || ||||||||| | || |||||||||||||| || ||    ||| | |||||||       || | | |   |  ||     ||  |    |    |   |    ||| |  ||    | | |  | |  ||       |  | |     
TCCAGATGGTTCCTTCTTTCTGCTTCATGCTTGTGCTCATAATCCTACTGGAGTAGATCCTTCAGAAGAACAATGGAGAGAGATCTCTTCCCAGATAAAGgtaacaatttatggaatagtacattaagtgcatgcttggttttcagtttcaaggcccaaaagtatgttcaaaaagtaaaactgaaaaagcattcggtttt

upper sequence: GRMZM2G146677_T01 (Zea mays), 5'ss of exon 5
lower sequence: AT2G30970.2 (Arabidopsis thaliana), 5'ss of exon 6
TCCAGATGGTTCATTCTTTTTGCTTCATGCATGTGCTCATAATCCCACCGGTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaactgaa---ctggggaacaaaaaagttgtatttcctgtgatcctac--aagccacacctaccagatttcactcttgttcctctatag-
||| || || ||||||||  | |||||||| |||||||||||||| || || ||||| ||||| ||||||||||||||||| ||||| || |  |||||||| ||      | |    ||       |      |   |||  || |  | || |   | |  | |    |||| |    ||  ||||   | |   
TCCGGAAGGGTCATTCTTCCTTCTTCATGCTTGTGCTCATAATCCTACTGGAGTAGACCCTACAGAGGAACAATGGAGAGAGATATCACAGCTATTCAAGgtgataactcatcagtttcttatagttatctgtctatcattgactttatttctccttgatcagccctctgcagactaacatcgagttctcatttcag

upper sequence: GRMZM2G146677_T01 (Zea mays), 5'ss of exon 5
lower sequence: Vv12s0028g01820.t01 (Vitis vinifera), 5'ss of exon 5
TCCAGATGGTTCATTCTTTTTGCTTCATGCATGTGCTCATAATCCCACCGGTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaactgaactggggaacaaaaaagttgtatttcctgtgatcctacaagccacacctaccagatttcactct----tgttcctctatag
|||| |||| ||||||||| | |||||||| ||||||||||| || || || || |||||| | ||||||||||||| ||| || ||  | ||||||||||||                |  | | || |  |   |||  |    | ||     |   || | |||  ||| | |      || || | |  ||
TCCAAATGGATCATTCTTTCTACTTCATGCTTGTGCTCATAACCCTACTGGAGTGGATCCTTCAGAGGAACAATGGAAAGAGATCTCATACCAGTTCAAGgta----------------gacatagaagatgttcttttttttcagttctctgtactg-actttccatgttttaatacattatgatcattttcag

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|31349057|gb|CD433414.1|CD433414
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCTTTT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|32839278|gb|CD978959.1|CD978959
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|67018941|gb|CO447690.1|CO447690
EST:     GTAGATCCTACGGGAG-AACAATGGAGAGGAAA-ATCCCCTCAGTTCAAG                         GTGAAAAAACACTTTTC-ATTCTTTGACATGGGC-TACCAAGGGGTTTGCC
genomic: GTAGATCCTACGG-AGGAACAATGGAGAG-AAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACA-TTTTCCATTCTTTGACATGG-CATACCAAGGG-TTTGCC
EST: gi|32935308|gb|CF040120.1|CF040120
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAGACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|6056460|gb|AW090850.1|AW090850
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|6022517|gb|AW067550.1|AW067550
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|31353240|gb|CD437597.1|CD437597
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|67017765|gb|CO446514.1|CO446514
EST:     GTAGATCCTACGGAGGAACAATGGNAGAGAA-TATCCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATG-CATACCAAGGGTTTGCCAGT
genomic: GTAGATCCTACGGAGGAACAATGG-AGAGAAATATCCC-ATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|32908144|gb|CF012957.1|CF012957
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|31351617|gb|CD435974.1|CD435974
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|32928193|gb|CF033005.1|CF033005
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|6020423|gb|AW065351.1|AW065351
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|31361066|gb|CD445423.1|CD445423
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|31353746|gb|CD438103.1|CD438103
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|149010059|gb|EE041864.2|EE041864
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATAC
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATAC
EST: gi|32807551|gb|CD959785.1|CD959785
EST:     GATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|32847461|gb|CD987142.1|CD987142
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|32797816|gb|CD950052.1|CD950052
EST:     GATCCGACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|32847350|gb|CD987031.1|CD987031
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|148957409|gb|EC903466.2|EC903466
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTTCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|211237765|gb|FL127825.1|FL127825
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGYTCAAG                         GTGAAAAAACATTTTTCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|67016435|gb|CO445184.1|CO445184
EST:     GTAGATCCTACNGGAG-AACCCATGGAGAGAA-TATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGGTTGCCAGT
genomic: GTAGATCCTAC-GGAGGAACA-ATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|149105256|gb|EE290747.2|EE290747
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTTCATTCTTTGACATGGCATAC
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATAC
EST: gi|33100140|gb|CF060100.1|CF060100
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|31349528|gb|CD433885.1|CD433885
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|31352769|gb|CD437126.1|CD437126
EST:     TGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: TGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|84977385|gb|DW475807.1|DW475807
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|67016081|gb|CO444830.1|CO444830
EST:     TGTAGATCCTACGGGAGGAACA-TGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTNTCCATTCTTTGACATGGCATACCAAGGGGTTGCCAGT
genomic: TGTAGATCCTACGG-AGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|32799286|gb|CD951522.1|CD951522
EST:     GATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|32934615|gb|CF039427.1|CF039427
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|31350259|gb|CD434616.1|CD434616
EST:     GAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|31356230|gb|CD440587.1|CD440587
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|67028302|gb|CO457051.1|CO457051
EST:     GTGTAGATCCTACGGAGGAACA-TGGAGAGGAATATCCCATCAGTTCAAG                         GGGAAAAAACATTTTCCATTCTTTGA-ATGGCATACCAGGGGTT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTT
EST: gi|31361600|gb|CD445957.1|CD445957
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|50323492|gb|CO518618.1|CO518618
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GGTGAAAAAACATTTTCCATTCTTTGACAT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagG-TGAAAAAACATTTTCCATTCTTTGACAT
EST: gi|149080001|gb|EE169021.2|EE169021
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGC
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGC
EST: gi|31355562|gb|CD439919.1|CD439919
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|5846903|gb|AI999986.1|AI999986
EST:     ATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: ATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|18172785|gb|BM348173.1|BM348173
EST:     ATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: ATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|32836974|gb|CD976652.1|CD976652
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|78110052|gb|DV528467.1|DV528467
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGG
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGG
EST: gi|67010595|gb|CO439344.1|CO439344
EST:     GTAGATCCTACGGGAG-AACAATGGNAGAGAA-TATCCCATCAGTTCAAG                         GTGAAAAAAC-TTTTCCATTCTTTGACATG-CATACCAAAGGTTTGCCANT
genomic: GTAGATCCTACGG-AGGAACAATGG-AGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|149012758|gb|EE042647.2|EE042647
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTTCATTCTTTGACATGGCATACCAAGGGTTT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTT
EST: gi|31349323|gb|CD433680.1|CD433680
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|31360383|gb|CD444740.1|CD444740
EST:     GTGTAGATCCTACGGAGGAACAGTGGAGAGAAATATCC-ATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATG-CATACCA
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCA
EST: gi|32805030|gb|CD957266.1|CD957266
EST:     GATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|32800773|gb|CD953009.1|CD953009
EST:     GATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|31353745|gb|CD438102.1|CD438102
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|5296287|gb|AI783057.1|AI783057
EST:     AGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
genomic: AGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGT
EST: gi|211502932|gb|FL212595.1|FL212595
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGATATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGA
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGA
EST: gi|31354884|gb|CD439241.1|CD439241
EST:     GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAG                         GTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCC
genomic: GTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCC

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: 46 (upstream exon), 49 (downstream exon)
Score: 73

TCCAGATGGTTCATTCTTTTTGCTTCATGCATGTGCTCATAATCCCACCGGTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGTGGTGATCCAGAGAGAGATGCCAAGGCAATCCGAATTTTCCTTGAAGATG


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 224

TCCAGATGGTTCATTCTTTTTGCTTCATGCATGTGCTCATAATCCCACCGGTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGTGGTGATCCAGAGAGAGATGCCAAGGCAATCCGAATTTTCCTTGAAGATG


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 128

TCCAGATGGTTCATTCTTTTTGCTTCATGCATGTGCTCATAATCCCACCGGTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGTGGTGATCCAGAGAGAGATGCCAAGGCAATCCGAATTTTCCTTGAAGATG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 121

TCCAGATGGTTCATTCTTTTTGCTTCATGCATGTGCTCATAATCCCACCGGTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaa ... tcctctatagGTGAAAAAACATTTTCCATTCTTTGACATGGCATACCAAGGGTTTGCCAGTGGTGATCCAGAGAGAGATGCCAAGGCAATCCGAATTTTCCTTGAAGATG


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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCAGATGGTTCATTCTTTTTGCTTCATGCATGTGCTCATAATCCCACCGGTGTAGATCCTACGGAGGAACAATGGAGAGAAATATCCCATCAGTTCAAGgtaatgggaactgaactggggaacaaaaaagttgtatttcctgtgatcctacaagccacacctaccagatttcactcttgttcctctatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA