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'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttataaacctgcaaatcaccattgtccattcataagctatcaggttgacccgaccacattctcattactgatatcattttgttttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCTATTGTAGAGTTCATGACATTTAACTTTTCGATGCAG

Basic information

species Zea mays
transcript GRMZM2G043198_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G043198_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os08g42410.2 (Oryza sativa), 3'ss of exon 3
------gttataaacctgc----aaatcaccattgtccattcataagctatcaggttgacccgaccacattctcattactgatatcattttgttttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCTATTGTAGAGTTCATGACATTTAACTTTTCGATGCAG
       |  ||||||| |      | | |   |||||| ||||||||    ||  |||| |   ||||||   | |||||||||  ||   || || ||||||| || || ||||| |||||||||||||| || || || |||||||| ||| | || |||||||||||||||||||| || ||||||
gtgatactcttaaaccttctgagtgaccgctggtgtccactcataagcagctagagtgacgcagtcacattga-agtactgatatgtttgcattctg-ttcagGCTGGTTTTACTGGAATTGGTGTTGGTGCTGCCTATCAAGGTCTTCGCCCTGTGGTTGAGTTCATGACATTTAACTTCTCTATGCAG

upper sequence: GRMZM2G043198_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA02G46380.2 (Glycine max), 3'ss of exon 5
gttataaacctgcaaatcaccattgtccattcataagctatcaggttgacccgaccacattctcattactgatatcattttgttttgg-------ttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCTATTGTAGAGTTCATGACATTTAACTTTTCGATGCAG
| |    || |  ||||    |         ||| |  | |    |  |   |    ||        | ||| || ||||| || ||        | ||||| || || ||||| ||||| ||||| || |||||| |||||||  | ||| |||| ||||||||||| |||||||| || ||||||
gcttctcactttaaaattcataggaaaataacatgattttttttttatagttggttgcagctgttggattgacataatttttttgtgaaatataatacagGCTGGGTTTACTGGGATTGGAGTTGGCGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTCATGACTTTTAACTTCTCCATGCAG

upper sequence: GRMZM2G043198_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv01s0146g00310.t01 (Vitis vinifera), 3'ss of exon 6
------------------------gttataaacctgcaaatcaccattgtccattcataagctatcaggttgacccgaccacattctcattactgat-atcatttt-------gttttggtt----------cagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCTATTGTAGAGTTCATGACATTTAACTTTTCGATGCAG
                          |||||      || |      |  |  ||  |||  | |  | || | || |  |  |||| |||| |  |  | | |||        | || |||          ||||| || || ||||| ||||| |||||||| |||||| ||||||||   ||| |||||||||||||||||||||| || || ||||||
gtaagttctgttacatgacttgcccatataagtggataagtttttgct-cctttttgtaaattttgtgattaatccaaaaattttcttattattagtcgttactttctacaacatgtttgttacatattttgcagGCTGGTTTTACTGGGATTGGAGTTGGTGCTGCTTACTATGGTCTTAAGCCTGTTGTAGAGTTCATGACATTTAATTTCTCTATGCAG

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|211444057|gb|FL415432.1|FL415432
EST:     TGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211273080|gb|FL371948.1|FL371948
EST:     TGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGAC-T
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211491514|gb|FL426447.1|FL426447
EST:     TGCTTGACAAGTATGGCCCCGATAGG-TTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGAC-T
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211003333|gb|FL404181.1|FL404181
EST:     TGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|148930818|gb|EC873192.2|EC873192
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211084499|gb|FL378037.1|FL378037
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|32828890|gb|CD968568.1|CD968568
EST:     TGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|32799489|gb|CD951725.1|CD951725
EST:     TGCTTGACAAGTATGGCCCGGGTAGGGTTCTTGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|32804720|gb|CD956956.1|CD956956
EST:     TGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|38687965|gb|CK144996.1|CK144996
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTAGGTGCCGCTTACCAATGGTCTTCGACC
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCA-TGGTCTTCGACC
EST: gi|93281968|gb|EB674232.1|EB674232
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211431560|gb|FL401076.1|FL401076
EST:     GCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGNCGCTTACCATGGTCTTCGACC
genomic: GCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTG-AGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACC
EST: gi|211311674|gb|FL419261.1|FL419261
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211503999|gb|FL380203.1|FL380203
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211056917|gb|FL385087.1|FL385087
EST:     GCTTGACAAGTATGGCCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGG
genomic: GCTTGACAAGTATGGCCCC-GATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGG
EST: gi|211395332|gb|FL395257.1|FL395257
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211017664|gb|FL418154.1|FL418154
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211499368|gb|FL394923.1|FL394923
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211423792|gb|FL402788.1|FL402788
EST:     TGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211063939|gb|FL426137.1|FL426137
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|32828953|gb|CD968631.1|CD968631
EST:     TGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211099620|gb|FL375433.1|FL375433
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTANCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211542664|gb|FL412592.1|FL412592
EST:     TGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211054277|gb|FL399886.1|FL399886
EST:     TGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGA
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGA
EST: gi|211479962|gb|FL426376.1|FL426376
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|31357689|gb|CD442046.1|CD442046
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGGCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|20507600|gb|BQ279700.1|BQ279700
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
EST: gi|211530195|gb|FL395784.1|FL395784
EST:     TGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCAT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCAT
EST: gi|211016844|gb|FL388973.1|FL388973
EST:     TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG                         GCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT
genomic: TGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAGgttataaacc ... tttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatcaggttgacccgaccacattctcattactgatatcattttgttttggttcagGCGGGCTTCACTGGCATTGGTGTTGGTGCCGCTTACCATGGTCTTCGACCTATTGTAGAGTTCATGACATTTAACTTTTCGATGCAG
                            tactgat  putative branch site (score: 2)
                                       ttttgtttt  putative PPT
                                 atatcattttgtttt  TA-rich tract