Sequence
atgc intronic sequence ATGC exonic sequenceGAATTCACACAAGAGATTTGCTAATGCATTCCCAAAGTATTGTGAGCTTGTTGATAACGCTAGGCTTTATTGCACCAATGCTGTTGGTGGTCCTCCAAGGgtaaattagtcaaaagtcaatatcaaatctattacgatgtcgtttttgggagagatactgatgtgtgtgttttaattggttggtggagcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G04280.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G04280.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA20G34750.1 (Glycine max), 5'ss of exon 7
GAATTCACACAAGAGATTTGCTAATGCATTCCCAAAGTATTGTGAGCTTGTTGATAACGCTAGGCTTTATTGCACCAATGCTGTTGGTGGTCCTCCAAGGgtaaatt-agtcaaaagtcaatatcaaatctattacgatgtc-gtttttggg----agagatactgatgtgt-gtgttt-taattggttggtggagcag-----
||| || ||||| ||||||||||||||||| |||| ||||| | ||||||||||| || || || |||||||| ||||||||||||||||| |||| |||||||| ||| | ||| | | | |||| | |||| | | | | ||| || ||| | | || | ||
GAAATCTCACAAAAGATTTGCTAATGCATTTCCAAGATATTGCAAACTTGTTGATAATGCCAGACTCTATTGCACAAATGCTGTTGGTGGTCCACCAAAGgtaaatttgaacaattttgcatacctgttgtgcagaaatgtttgattttacaccttatcagttttaaaatgtcatgaagataactttcttgtagtacattacag
upper sequence: AT1G04280.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA20G34760.1 (Glycine max), 5'ss of exon 6
GAATTCACACAAGAGATTTGCTAATGCATTCCCAAAGTATTGTGAGCTTGTTGATAACGCTAGGCTTTATTGCACCAATGCTGTTGGTGGTCCTCCAAGGgtaaattag-------tcaaaagtcaatatca--aatctattacgatgtcgtttt--tgggagagatactgatgtgtgtgttttaattggttggtggagcag-----
||| || ||||| ||||||||||||||||| |||| | ||| | ||||||||| | || ||||| |||||||| |||| ||| |||||||| ||| |||||||| | | | | | | | || |||| | | ||| | | | || |||| ||| | | || ||
GAAATCTCACAAAAGATTTGCTAATGCATTTCCAAGATTTTGCAAACTTGTTGATGATGCCAGGCTCTATTGCACAAATGATGTGGGTGGTCCACCACAGgtaaattcgaacatttttgcacgctcttgtgatgaaatgattaatttcacactttactagtattaatttaaatgtcaaaaaggtaacaagcttgtaacacattacag
upper sequence: AT1G04280.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA10G32900.2 (Glycine max), 5'ss of exon 4
GAATTCACACAAGAGATTTGCTAATGCATTCCCAAAGTATTGTGAGCTTGTTGATAACGCTAGGCTTTATTGCACCAATGCTGTTGGTGGTCCTCCAAGGgtaaattagtcaaaagtcaatatc--------aaatctattacgatgtcgtttttgggagagatactgatgtgtgtgttt------taattggttggtggagcag-----
||| || ||||| ||||||||||||||||| |||| | ||| | ||||||||| | || ||||| |||||||| |||| ||| |||||||| ||| ||||| | || | | | || |||| | | ||| || | || | ||| ||| | | || ||
GAAATCTCACAAAAGATTTGCTAATGCATTTCCAAGATTTTGCAAACTTGTTGATGATGCCAGGCTCTATTGCACAAATGATGTCGGTGGTCCACCACAGgtaattcgaacatctttgcacactcttgtgaagaaatgattaatttcacactttactagctagtattaatttaaatgtcaaaaaggtaacaagcttgtaacacattacagMapped 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|309381031|gb|HO850252.1|HO850252EST: TTGATAACGCTAGGCTTTATTGCACCAATGCTGTTGGTGGTCCTCCAAGG CTTATAGCGTGGAAAGACGGAAATAGTAAGCTTCTGGTGGATCCAGAGGAT
genomic: TTGATAACGCTAGGCTTTATTGCACCAATGCTGTTGGTGGTCCTCCAAGGgtaaattagt ... ggtggagcagCTTATAGCGTGGAAAGACGGAAATAGTAAGCTTCTGGTGGATCCAGAGGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAATTCACACAAGAGATTTGCTAATGCATTCCCAAAGTATTGTGAGCTTGTTGATAACGCTAGGCTTTATTGCACCAATGCTGTTGGTGGTCCTCCAAGGgtaaattagtcaaaagtcaatatcaaatctattacgatgtcgtttttgggagagatactgatgtgtgtgttttaattggttggtggagcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG