Sequence
atgc intronic sequence ATGC exonic sequenceTGCAGGAGGAGTGGTTTTGGCTTCTCGTGATGGGAAAATCGTGTGTGAAAACACGCTTGATGCGAGGTTGGAGGTTGCCTTCCGCAATAAACTTCCAGAGgttaaattaaaatccccatttgctctcttaaatttgtagtaccatgttcctaagcttataccttcttattggtttcaaaactcttgaaacctcatttgtcttgtcctaagtatttttagttttgttctaaaggatcttttcttgaaatgtgtgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G64200.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G64200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G02390.1 (Glycine max), 5'ss of exon 5
TGCAGGAGGAGTGGTTTTGGCTTCTCGTGATGGGAAAATCGTGTGTGAAAACACGCTTGATGCGAGGTTGGAGGTTGCCTTCCGCAATAAACTTCCAGAGgttaaattaaaatccccatttgctctcttaaatttgtagtaccatgttcctaa-gcttataccttcttattggtttcaaaactcttgaaacctcatttgtcttgtcctaagtatttttagttttgttctaaaggatcttttcttgaaatgtgtgtag
| || || ||||| ||||||||||||||||| || || ||||||||||| || |||||||| | | || || | ||||| || || ||||||||||| ||| || | || || | | | | ||| | | | | ||| | || ||| || | ||||| | | ||| | | || ||
CTCTGGTGGGGTGGTGTTGGCTTCTCGTGATGGAAAGATTGTGTGTGAAAATACACTTGATGCACGTCTTGATGTAGTTTTCCGTAAAAAGCTTCCAGAGgtaaaaaagaactgagtata-gcagttcttattctgtgatgttagatatttgttgctgaattgtttttactgtt-----gactctcgta-------ttgctctcactcaaata--------------------------------------------
upper sequence: AT1G64200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA05G37160.1 (Glycine max), 5'ss of exon 5
TGCAGGAGGAGTGGTTTTGGCTTCTCGTGATGGGAAAATCGTGTGTGAAAACACGCTTGATGCGAGGTTGGAGGTTGCCTTCCGCAATAAACTTCCAGAGgttaaattaaaatccccatttgctctcttaaatttgtagtaccatgttcctaagcttataccttcttattggtttcaaaactcttgaaacctcatttgtcttgtcctaagtatttttagttttgttctaaaggatcttttcttgaaatgtgtgtag
| || || ||||| ||||||||||||||||| || || ||||||||||| || |||||||| | | || || | ||||| || || ||||||||||| || | | | | | | ||| | | || ||| ||| | | |||| | | || | || | || | |||| |
CTCTGGTGGGGTGGTGTTGGCTTCTCGTGATGGAAAGATTGTGTGTGAAAATACTCTTGATGCACGACTTGATGTAGTGTTCCGTAAAAAGCTTCCAGAGgtaaatattttgtgcatagcaattgtttta---------ttctgtgactctatcctttttgttaaatatttgccgctgaatttttactgtgactttcatattgtttcca-----------------------------------------------
upper sequence: AT1G64200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G02420.1 (Glycine max), 5'ss of exon 5
TGCAGGAGGAGTGGTTTTGGCTTCTCGTGATGGGAAAATCGTGTGTGAAAACACGCTTGATGCGAGGTTGGAGGTTGCCTTCCGCAATAAACTTCCAGAGgttaaattaaaatccccatttgctctcttaaatttgtagtaccatgttcctaagcttataccttcttattggtttcaaaactcttgaaacctcatttgtcttgtcctaagtatttttagttttgttctaaaggatcttttcttgaaatgtgtgtag
| || || ||||| ||||||||||||||||| || || ||||||||||| || |||||||| | | || || | ||||| || || ||||||||||| || | | | | || | ||| | ||| | | || | | ||| | | | | | || ||| || | | | ||| |
CTCTGGTGGGGTGGTGTTGGCTTCTCGTGATGGAAAGATTGTGTGTGAAAATACTCTTGATGCACGACTTGATGTAGTGTTCCGTAAAAAGCTTCCAGAGgtaaatattttgtgcataacaactgttttat-tgtgtggctctatcctttttgttagatatttgcc-----gctgtattgctactga---ctttcatattgtttccaag-----------------------------------------------
upper sequence: AT1G64200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA05G37190.1 (Glycine max), 5'ss of exon 5
TGCAGGAGGAGTGGTTTTGGCTTCTCGTGATGGGAAAATCGTGTGTGAAAACACGCTTGATGCGAGGTTGGAGGTTGCCTTCCGCAATAAACTTCCAGAGgttaaattaaaatccccatttgctctcttaaatttgtagtaccatgttcctaagcttataccttcttattggtttcaaaactcttgaaacctcatttgtcttgtcctaagtatttttagttttgttctaaaggatcttttcttgaaatgtgtgtag
| || || ||||| ||||||||||||||||| || || ||||||||||| || |||||||| | | || || | ||||| || || ||||||||||| ||| ||||| | | | || | | | |||| || | | ||| || | ||| |||| ||| | | || ||
CTCCGGTGGGGTGGTGTTGGCTTCTCGTGATGGAAAGATTGTGTGTGAAAATACTCTTGATGCACGTCTTGATGTAGTTTTCCGTAAAAAGCTTCCAGAGgtaaaaaaaaaattgca----------tagcagttcttattcagtgttgttagatatttgttgctgaattcttt---atactgttgagtttcatattgctctcactcaaataa-------------------------------------------
upper sequence: AT1G64200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv02s0025g01000.t01 (Vitis vinifera), 5'ss of exon 5
TGCAGGAGGAGTGGTTTTGGCTTCTCGTGATGGGAAAATCGTGTGTGAAAACACGCTTGATGCGAGGTTGGAGGTTGCCTTCCGCAATAAACTTCCAGAGgttaaattaaaatccccatttgctctcttaaatttgtagtaccatgttcctaagcttataccttcttattggtttcaaaactcttgaaacctcatttgtcttgtcctaagtatttttagttttgttctaaaggatcttttcttgaaatgtgtgtag
| ||||| ||||| ||||||||||| ||||||||||| || ||||| ||||| |||||||| || ||||| |||| ||||| || |||||||||||||| || | || | | |||| | | ||| ||| || | ||||| | ||| ||| | || | |||| | | | | | |
CTCTGGAGGTGTGGTGTTGGCTTCTCGAGATGGGAAAATTGTATGTGAGAACACCCTTGATGCAAGATTGGATGTTGTATTCCGTAAAAAACTTCCAGAGgt---------atttgctcttcaaagttcatattttttttccca-gttacttggtttatataccccaatta---tcagtcaattggacatttcatctttatgttatttgctgc-------------------------------------------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|116453488|gb|EG496080.1|EG496080EST: ACACGCTTGATGCGAGGTTGGAGGTTGCCTTCCGCAATAAACTTCCAGAG ATCCGAAAGTCGCTCTTCGGCAAG
genomic: ACACGCTTGATGCGAGGTTGGAGGTTGCCTTCCGCAATAAACTTCCAGAGgttaaattaa ... atgtgtgtagATCCGAAAGTCGCTCTTCGGCAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCAGGAGGAGTGGTTTTGGCTTCTCGTGATGGGAAAATCGTGTGTGAAAACACGCTTGATGCGAGGTTGGAGGTTGCCTTCCGCAATAAACTTCCAGAGgttaaattaaaatccccatttgctctcttaaatttgtagtaccatgttcctaagcttataccttcttattggtttcaaaactcttgaaacctcatttgtcttgtcctaagtatttttagttttgttctaaaggatcttttcttgaaatgtgtgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG