Sequence
atgc intronic sequence ATGC exonic sequenceTGCCATTAAGGCAAAAGAACTTTTTCTCAGAGATGTGAACTATATCATCCGAGCAAAGGAGGTTCTTATCGTGGATGAGTTTACTGGTCGTGTAATGCAGgtacttgtgtatattcatcttaataagaaatatcactatttatcattttagtgatctcagtggctactgctgataaatattcttaggccacaagaacaacatagattaaaaaaaaacagtacgtaggaacccactgaataagttatttctttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G01800.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G01800.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA02G01060.3 (Glycine max), 5'ss of exon 7
TGCCATTAAGGCAAAAGAACTTTTTCTCAGAGATGTGAACTATATCATCCGAGCAAAGGAGGTTCTTATCGTGGATGAGTTTACTGGTCGTGTAATGCAGgtacttgtgtatatt------catcttaataagaaatatcactatttatcattttagtgatctcagtggctactgctgataaatattcttaggccacaagaacaacatagattaaaaaaaaacagtacgtaggaacccactgaataagttatttctttcag
||| || || ||||||||||| ||||| ||||||| ||||| ||||| || | ||| ||||| || || || ||||||||||||||||| || ||||||||| || || | | || | || ||| | | | || | || ||| | | | ||| ||||| | |||
TGCAATAAAAGCAAAAGAACTATTTCTTCGAGATGTAAACTACATCATTCGTGGAAAAGAGGTCCTAATTGTTGATGAGTTTACTGGTCGAGTCATGCAGgtatttagagattctacttggcctcatggaaataaacaatttaactagccaaggcaaggagaatagtag-tgccatcaatagcagttcttgatctacattt------------------------------------------------------------
upper sequence: AT4G01800.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA10G27810.1 (Glycine max), 5'ss of exon 7
TGCCATTAAGGCAAAAGAACTTTTTCTCAGAGATGTGAACTATATCATCCGAGCAAAGGAGGTTCTTATCGTGGATGAGTTTACTGGTCGTGTAATGCAGgtacttgtgtat---attcatcttaataagaaatatca--ctatttatcattt-tagtgatctcagtggctactgctgataa-atattcttaggccacaagaacaacatagattaaaaaaaaacagtacgtaggaacccactgaataagttatttctttcag
||| || || ||||||||||| ||||| ||||||| ||||| || || || | ||| ||||| ||||| || ||||||||||||||||| || ||||||||| || || | | ||| || || | || || || || | || ||| | | | || | ||||| |||
TGCAATAAAAGCAAAAGAACTATTTCTTCGAGATGTAAACTACATAATTCGTGGAAAAGAGGTCCTTATTGTTGATGAGTTTACTGGTCGAGTCATGCAGgtatttagagattctacttgacttgatggaaataaacaatttaactaccaaaggcaaggagaatagtag-tgccatcaatggcagtttcttgatttacatt-------------------------------------------------------------
upper sequence: AT4G01800.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv07s0005g02610.t01 (Vitis vinifera), 5'ss of exon 7
TGCCATTAAGGCAAAAGAACTTTTTCTCAGAGATGTGAACTATATCATCCGAGCAAAGGAGGTTCTTATCGTGGATGAGTTTACTGGTCGTGTAATGCAGgtactt-gtgtatattcatcttaa-taagaaatatcactatttatcattttagtgatctcagtggctactgctgataaatattcttaggccacaagaacaacatagattaaaaaaaaacagtacgtaggaacccactgaataagttatttctttcag
||| || ||||| |||||||||||||| |||||||| ||||||||||| || | ||||||||| || || |||||||||||||| ||||| || |||||||| | || ||| | | || | | || | || ||||| |||| |||| || | | || || | |
TGCAATAAAGGCGAAAGAACTTTTTCTTAGAGATGTAAACTATATCATTCGTGGAAAGGAGGTCCTGATTGTGGATGAGTTTACAGGTCGAGTTATGCAGgtgatcagtttatctcagttttggctttgtaaaaacaaattttatggaacaga--atctttagcataactgtgtgtatactgtattcctttccatttcctat-------------------------------------------------------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|125004226|gb|EL076495.1|EL076495EST: GGAGGTTCTTATCGTGGATGAGTTTACTGGTCGTTGTTAATGCAG GGAAGACGTTGGAGTGATGGACTACATCAAGCTGTTGAAGCAAAAGAAGG
genomic: GGAGGTTCTTATCGTGGATGAGTTTACTGGTCG-TG-TAATGCAGgtacttgtgt ... tttctttcagGGAAGACGTTGGAGTGATGGACTACATCAAGCTGTTGAAGCAAAAGAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCCATTAAGGCAAAAGAACTTTTTCTCAGAGATGTGAACTATATCATCCGAGCAAAGGAGGTTCTTATCGTGGATGAGTTTACTGGTCGTGTAATGCAGgtacttgtgtatattcatcttaataagaaatatcactatttatcattttagtgatctcagtggctactgctgataaatattcttaggccacaagaacaacatagattaaaaaaaaacagtacgtaggaacccactgaataagttatttctttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG