Sequence
atgc intronic sequence ATGC exonic sequenceTGCCACGACCGGGGGAATTCTAGATCGAGCTATAGAAGCTGAGGACAGGAAGCATGGAGATTTCTTGAGACTGgtatagttctgaatatagttcactgtttaacaagtctaaggctagctcttatcttcattctcattactcacttgttttttatag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G05170.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G05170.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA06G46230.2 (Glycine max), 5'ss of exon 6
TGCCACGACCGGGGGAATTCTAGATCGAGCTATAGAAGCTGAGGACAGGAAGCATGGAGATTTCTTGAGACTGgtatagttctgaatatagttcactgtttaacaagtctaaggctagctcttatcttcattctcattactcacttgttttttatag--------------------------------------------------
||| || | || || |||||||| ||||||| ||||| |||||||| |||||||||||||||||||| |||||| || |||| | | | || ||| | | | | ||| || | ||| | | |||| | |
TGCTACATCAGGTGGTATTCTAGACAGAGCTATTGAAGCAGAGGACAGAAAGCATGGAGATTTCTTGAGGCTGgtaatgtgacatatatgatccctt--ttcacattttttcctaccgtttctataatcgct-tcacagtgtcatagcttttgaagggaaagggaaaaatgtcacaggttttcacttctttatttgtttatatgcag
upper sequence: AT1G05170.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA12G10520.1 (Glycine max), 5'ss of exon 6
TGCCACGACCGGGGGAATTCTAGATCGAGCTATAGAAGCTGAGGACAGGAAGCATGGAGATTTCTTGAGACTGgtatagttctgaatata-gttcactgtttaacaagtctaaggctagctcttatcttcattctcattactcacttgttttttatag-----------------------------------------------
||| || | || || ||| |||| ||||||| ||||| |||||||| ||||||||||||||||| || |||||| ||| | | | ||| ||| | | | | ||| ||| | || | | | | | |||| | |
TGCTACATCAGGTGGTATTTTAGACAGAGCTATTGAAGCAGAGGACAGAAAGCATGGAGATTTCTTAAGGCTGgtaatgtttccctcccacatgtcccttttcacatttttt---ttcaccctt-tctaaactcgcttcagt-gtcagcttttgaagggaaagggaaaaatgtcacagattttcacttctttatactatgtgcag
upper sequence: AT1G05170.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA12G31980.1 (Glycine max), 5'ss of exon 6
TGCCACGACCGGGGGAATTCTAGATCGAGCTATAGAAGCTGAGGACAGGAAGCATGGAGATTTCTTGAGACTGgta-tagttctgaatatagt-tcactgtttaacaagt--ctaaggctagctcttatcttcattctcattactcacttgtt----ttttatag-----------------------------------------------------------------------------
|||||| | ||||| || |||| ||||||| ||||| || || |||||||||||||||||| ||||||||||| | | || | | | | |||||| | || ||| | || ||| | | | | || ||||||| | | | || |
TGCCACATCAGGGGGTATCTTAGACAGAGCTATTGAAGCAGAAGATAGGAAGCATGGAGATTTCCTGAGACTGgtaatgatcctctttgtcttattgctgttttccccgttgtctcttctatcatttgtctctact-tgaataatcacttgataagatatcatggtcacatttatttgaaggaaaaattaaataaaaaaaaagaaatgcaacaagtttcaaacctctgttttgatttttcagMapped 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|125069562|gb|EL135295.1|EL135295EST: CAGGAAGCATGGAGATTTCTTGAGACTG GACCATGTTGAAGGGTACCTAGAGTTGTCAGGCAAGACGAAAA
genomic: CAGGAAGCATGGAGATTTCTTGAGACTGgtatagttct ... ttttttatagGACCATGTTGAAGGGTACCTAGAGTTGTCAGGCAAGACGAAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCCACGACCGGGGGAATTCTAGATCGAGCTATAGAAGCTGAGGACAGGAAGCATGGAGATTTCTTGAGACTGgtatagttctgaatatagttcactgtttaacaagtctaaggctagctcttatcttcattctcattactcacttgttttttatag
- - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT