Sequence
atgc intronic sequence ATGC exonic sequenceGCTCGCTACCATGAAAGCTTTGGATAATCTTGGATTGGATGTTCAGCAAGCTGTGATCAGCTGTTTTAATGGGTTTGCCTTGGATGTTTTCCGCGCTGAGgtgatcttctactctcagttgaaaggttaaggatttgtagaacagttttagtagtaacatgttttcttttgtctatcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G26744.4 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G26744.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g70310.2 (Oryza sativa), 5'ss of exon 3
GCTCGCTACCATGAAAGCTTTGGATAATCTTGGATTGGATGTTCAGCAAGCTGTGATCAGCTGTTTTAATGGGTTTGCCTTGGATGTTTTCCGCGCTGAGgtgatcttctactctcagttgaaaggttaaggatttgtag--aacagttttagtagtaacatgttttcttttgtctatcag-----------------------------------------------
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GATGTCCACATTGAGGGCTCTCGACAGCCTTGGCCTCGGGATCGAGCAGGCGGTCATCAGCTGTTTCAATGGGTTTGCAATGGATGTTTTCCGCGCCGAGgt--ttgcattctccacatcataatatttttctcctccagctgagggttttttttcagttgtgttcgatctgatcctaccgttgttgttcactctcttaatgcttgctctgtacttctgttttgccag
upper sequence: AT3G26744.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA19G27480.2 (Glycine max), 5'ss of exon 3
GCTCGCTACCATGAAAGCTTTGGATAATCTTGGATTGGATGTTCAGCAAGCTGTGATCAGCTGTTTTAATGGGTTTGCCTTGGATGTTTTCCGCGCTGAGgtgatcttctactctcagttgaaaggttaaggatttgtagaacagttttagtagtaacatgttttcttttgtctatcag---------------------------
||| |||||||||| ||||||||||| || ||||||||||| ||||| ||||| || |||||||||||||| ||||| || ||||| ||| |||||||| |||| | || | ||| | ||||| | || || | | || || ||| ||| |
GCTTTCTACCATGAAGGCTTTGGATAACCTCGGATTGGATGTACAGCAGGCTGTTATTAGCTGTTTTAATGGCTTTGCTTTAGATGTGTTCAAAGCTGAGgtataattctctctcctgt------gccaagcttcacctgaacatatctattattgatttgccttacttttattatgattctcgtcattgatgtttatttgggaat
upper sequence: AT3G26744.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA16G05390.1 (Glycine max), 5'ss of exon 3
GCTCGCTACCATGAAAGCTTTGGATAATCTTGGATTGGATGTTCAGCAAGCTGTGATCAGCTGTTTTAATGGGTTTGCCTTGGATGTTTTCCGCGCTGAGgtgatcttctactctcagttgaaagg------ttaaggat-----ttgtagaacagttttagtagtaacatgttttcttttg---tctatcag--------
||| ||||||||| ||||||||||| || ||||||||||| ||||| ||||| || |||||||||||||| ||||| || ||||| ||| || ||||| |||| ||||| ||| | | || | || || | | | |||| | || ||| || ||| | ||| |
GCTTTCTACCATGAGGGCTTTGGATAACCTCGGATTGGATGTACAGCAGGCTGTTATTAGCTGTTTTAATGGCTTTGCTTTAGATGTGTTCAAAGCCGAGgtataattct-ctctcgtttgccaagcttcacttgaacatatctattattaacttgctttaccattatgatgcttgtcattgaactttatttggtcattag
upper sequence: AT3G26744.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ37663 (Selaginella moellendorffii), 5'ss of exon 3
GCTCGCTACCATGAAAGCTTTGGATAATCTTGGATTGGATGTTCAGCAAGCTGTGATCAGCTGTTTTAATGGGTTTGCCTTGGATGTTTTCCGCGCTGAGgtgatcttctactctcagttgaaaggttaaggatttgtagaacagtt--ttagtagtaacatgttttcttttgtctatcag----------------
||| | | ||||||||||||||| ||| |||||||| ||||| ||||| |||||||| || || ||||| || | || || | ||| | || ||||| || | | | || | || | | | || || | | | || || | |||| ||
GCTGTCGATGATGAAAGCTTTGGATGGTCTCGGATTGGACGTTCAACAAGCAGTGATCAGTTGCTTCAATGGTTTCGTGTTTGACATCTTCAGAGCCGAGgt-atgctgaaaacacaccccttgcttgcttgaatcgcaccacctttgatcgatttttctatattgttctttgctgatggactttggattcctctagMapped 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|164099054|gb|EL984223.1|EL984223EST: CTGTGATCAGCTGTTTTAATGGGTTTGCCTTGGATGTTTTCCGCGCTGAG CAATGCCAAGAAGGACAAGAGATACTGCC
genomic: CTGTGATCAGCTGTTTTAATGGGTTTGCCTTGGATGTTTTCCGCGCTGAGgtgatcttct ... tgtctatcagCAATGCCAAGAAGGACAAGAGATACTGCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTCGCTACCATGAAAGCTTTGGATAATCTTGGATTGGATGTTCAGCAAGCTGTGATCAGCTGTTTTAATGGGTTTGCCTTGGATGTTTTCCGCGCTGAGgtgatcttctactctcagttgaaaggttaaggatttgtagaacagttttagtagtaacatgttttcttttgtctatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT