Sequence
atgc intronic sequence ATGC exonic sequenceGTTGAAGTAGTTGCTCTCTCGAGTTATGAAGAAAAAGAAGAGCAATTCAAAGAGCAGgtctgtttacaattagctttacattttgccattttggagaagatccagggtcaccttatgtgatttattgctcaatagatggcttgtaggtgatattaatgttttttctataatgttttctgtaaatgaaag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G13870.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: AC196426.3_FGT007 (Zea mays), 5'ss of exon 9
GTTGAAGTAGTTGCTCTCTCGAGTTATGAAGAAAAAGAAGAGCAATTCAAAGAGCAGgtctgtttacaattagctttacattttgccattttggagaagatccagggtcaccttatgtgatttattgctcaatagatggcttgtaggtgatattaatgttttttctataatgttttctgtaaatgaaag
||| |||| || || || |||||||||||||||||||||||| ||||||| ||||||| || || | | | | ||| || | | || | |||| ||| || ||| || || || | ||| | | ||| ||
GTTCAAGTTGTCGCACTGTCGAGTTATGAAGAAAAAGAAGAGTTATTCAAACAGCAGgttggtgtatatgaaatgtaa---------attgtgaaaagtatgct------ccttgcagattttgctg------ggattatttttaattgtaaacaat--tctctctgtag-------------------
upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA07G01230.1 (Glycine max), 5'ss of exon 10
GTTGAAGTAGTTGCTCTCTCGAGTTATGAAGAAAAAGAAGAGCAATTCAAAGAGCAGgtctgtttacaattagctttacattttgccattttggagaagatccagggtcaccttatgtgatttattgctcaatagatggcttgtaggtgatattaatgttttttctataatgttttctgtaaatgaaag
|||||||| |||||||| || |||||||||||||| ||||||||||| ||||| ||||| || || | | || ||| | | | | | | || || | || || | | | || ||| || | || || |
GTTGAAGTTGTTGCTCTTTCTAGTTATGAAGAAAAGGAAGAGCAATTTAAAGATCAGgtatg-----aagtttccttctgatttactagctgattgtattatatgacccattataaggatttcatggtt--gtttgtgtcttcatatctgcatcagtgattatg-------------------------
upper sequence: AT3G13870.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA08G20610.1 (Glycine max), 5'ss of exon 10
GTTGAAGTAGTTGCTCTCTCGAGTTATGAAGAAAAAGAAGAGCAATTCAAAGAGCAGgtctgtttacaattagctttacattttgccattttggagaagatccagggtcacc-ttatgtgatttattg-ctcaatagatggcttgtaggtgatattaatgttttttctataatgttttctgtaaatgaaag
|||||||| |||||||| || |||||||||||||| |||||||| || ||||||||||| | || | || ||| |||| || | || ||| | | || |||| || ||| || ||| || | |||| || ||| |
GTTGAAGTTGTTGCTCTTTCTAGTTATGAAGAAAAGGAAGAGCAGTTTAAAGAGCAGgtat---ta-agtttccttctgatttacttgttgattgtatgacccattataaggattttgtggttgtttgtcttcatatctg---catcagtgactata-tgtcatc--------------------------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|116444534|gb|EG487126.1|EG487126EST: TAGTTGCTCTCTCGAGTTATGAAGAAAAAGAAGAGCAATACAAAGAGCAG GTCTACAATTTGAGACAACGGTTCTTCCAATCTGTCGCACCTGGCGGGCTT
genomic: TAGTTGCTCTCTCGAGTTATGAAGAAAAAGAAGAGCAATTCAAAGAGCAGgtctgtttac ... taaatgaaagGTCTACAATTTGAGACAACGGTTCTTCCAATCTGTCGCACCTGGCGGGCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGAAGTAGTTGCTCTCTCGAGTTATGAAGAAAAAGAAGAGCAATTCAAAGAGCAGgtctgtttacaattagctttacattttgccattttggagaagatccagggtcaccttatgtgatttattgctcaatagatggcttgtaggtgatattaatgttttttctataatgttttctgtaaatgaaag
- - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG