Sequence
atgc intronic sequence ATGC exonic sequenceGGTTACAGGCATCTCTCTGGTCTCGACGAAGCCGTCATTAAGAACATTGAAGCTTGCAAGGAGCTCTCCACCATTACTCGCACCTCTCTCGGTCCCAATGgttcgtaatgtttctctgattgggatttgatctaatactgaaatgatgaatctcgttttctccgtttcgttttacttttacttgagtgttgtaagtagga...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G03960.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G03960.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA16G26920.1 (Glycine max), 5'ss of exon 1
GGTTACAGGCATCTCTCTGGTCTCGACGAAGCCGTCATTAAGAACATTGAAGCTTGCAAGGAGCTCTCCACCATTACTCGCACCTCTCTCGGTCCCAATGgt--tcgtaatgtttctctgattgggatttga---tctaatactgaaatga--tgaatctcgttttctccgtttcgttttacttttacttgagtgttgtaagtagga
|| | | ||| || ||||| ||||||||||| || | |||||||| || |||||||| | || ||||| |||||||| || || ||||||||||||||| | | | | | || | ||| | | | || | | | || | | | || | ||| || | || | |||
GGCCATAAGCACCTTTCTGGCCTCGACGAAGCGGTTCTCAAGAACATCGACGCTTGCAAACAACTTTCCACTATTACTCGAACTTCCCTCGGTCCCAATGgtaacaatcacgcataccctttttcgttttcactcttttctattcatcccaagtgggtgctgcatcttcagattccaaaagtttggatttttataatgtg-------
upper sequence: AT3G03960.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv08s0007g07460.t01 (Vitis vinifera), 5'ss of exon 1
GGTTACAGGCATCTCTCTGGTCTCGACGAAGCCGTCATTAAGAACATTGAAGCTTGCAAGGAGCTCTCCACCATTACTCGCACCTCTCTCGGTCCCAATGgt--tcgtaatgtttctctgattgggatttgatctaatactgaaatgatgaatctcgttttctccgtttcgttttacttttacttga-gtgttgtaagtagga---------------------------------------------------------------------------------------
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GGTCACAAGCATCTGTCTGGCCTTGAGGAAGCAGTTCTCAAGAACATTGACGCCTGCAAGCAACTCTCCGTTATCACTCGCACGTCTCTCGGTCCCAATGgtattccttttcatttctcatatgttgttctaactgggacctttttggagactttcgatcagttcgctgtgcattctatcttcttgttgagttgggaaaataattgatttttaaatcgcgctagatttgatcgggttatgtttgtaagaattgggtgttttttatttatttttatttttatgtgattcagMapped 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|86067734|gb|DR363491.1|DR363491EST: AGCTTGCAAGGAGCTCTCCACCATTACTCGCACCTCTCTCGGTCCCAATG GAATGAATAAAATGGTTATCAATCATTTGGACAAACTGTTTGTCACAAATG
genomic: AGCTTGCAAGGAGCTCTCCACCATTACTCGCACCTCTCTCGGTCCCAATGgttcgtaatg ... aatgtttcagGAATGAATAAAATGGTTATCAATCATTTGGACAAACTGTTTGTCACAAATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTTACAGGCATCTCTCTGGTCTCGACGAAGCCGTCATTAAGAACATTGAAGCTTGCAAGGAGCTCTCCACCATTACTCGCACCTCTCTCGGTCCCAATGgttcgtaatgtttctctgattgggatttgatctaatactgaaatgatgaatctcgttttctccgtttcgttttacttttacttgagtgttgtaagtagga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT