Sequence
atgc intronic sequence ATGC exonic sequenceAAATCTAGAGAATCTTGTATGGATTACGGTTTTCATATGGCAATCACAAAGTGGGATGAAGGTGTTTCCAGGGACATGGAGATGTTGGTCAAGGAAAAGGgtaaatgtcttgtcttgtgacacattgatgcctcacagttttggtgtttctatccctttagtttccctgctaagatgaaactgagtgcatatatctctaaattttgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G12200.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G12200.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g59340.3 (Oryza sativa), 5'ss of exon 7
AAATCTAGAGAATCTTGTATGGATTACGGTTTTCATATGGCAATCACAAAGTGGGATGAAGGTGTTTCCAGGGACATGGAGATGTTGGTCAAGGAAAAGGgtaaatgtcttgtcttgtgacac--attgatgcc-tcacagttttggtgtttctatccctttagtttccctgctaagatgaaactgagtgcatatatctctaaattttgtag
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AAGGCAGAAAAATCTGCCATGGATTATGGATTTCATATGGCCATTACAAAGTGGAATGATGATGTTTCGAGGGAAATGGAAACGATGGTTAAGGAACATGgtcagtacttctttttgtgctgtcagttattttcatcagaaataagaaattccattctggttcatgaagcaactcctatgtttcaacctgaaatcaactt------------
upper sequence: AT5G12200.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA02G44690.1 (Glycine max), 5'ss of exon 4
AAATCTAGAGAATCTTGTATGGATTACGGTTTTCATATGGCAATCACAAAGTGGGATGAAGGTGTTTCCAGGGACATGGAGATGTTGGTCAAGGAAAAGGgtaaatgtcttgtcttgtgacacattgatgcctcacagttttggtgtttctatccctttagtttccctgctaagatgaaactgagtgcatatatctctaaattttgtag
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AAGGCAAAGAAGTCTTGCATGGATTATGGTTTTCATATGGCTATTACCAAATGGGATGAAACTGTTTCCAGAGAAATGGAGCTCATGGTTAAGGAGAAAGgttgttattttattattt----ccttgatgcat-----ttttgataatttggttgattgggtggtacatctatgttttg--taattgcag-------------------
upper sequence: AT5G12200.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv06s0009g02790.t01 (Vitis vinifera), 5'ss of exon 4
AAATCTAGAGAATCTTGTATGGATTACGGTTTTCATATGGCAATCACAAAGTGGGATGAAGGTGTTTCCAGGGACATGGAGATGTTGGTCAAGGAAAAGGgtaaa-tgtcttgtct---tgtgacacattgatgcctcacagttttggtgtt--tctatccctttagtttccctgctaagatgaaactgagtgcatatatctctaaattttgtag----------------------
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AAAGCGAAAAAATCTTGTATGGATTATGGTTTTCATATGGCAATCACAAAATGGGATGAAAATGTTTCAAGGGAGATGGAAATCATGGTTAAGGAGAAAGgttagctgtttttttcaagtttattataataactctacatagattatgacttgatctacattggcaaatgtaaaccccatttggattcttctctaaatctgtatgaaatccttacttgtcttcttttcaacttacagMapped 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|124860781|gb|EH945218.1|EH945218EST: GTGGGATGAAGGTGTTTCCAGGGACATGGAGATGTTGGTCAAGGAAAAGG GTATCAACTCTTTCAAGTTTTTCCTAGCGTA
genomic: GTGGGATGAAGGTGTTTCCAGGGACATGGAGATGTTGGTCAAGGAAAAGGgtaaatgtct ... aattttgtagGTATCAACTCTTTCAAGTTTTTCCTAGCGTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAATCTAGAGAATCTTGTATGGATTACGGTTTTCATATGGCAATCACAAAGTGGGATGAAGGTGTTTCCAGGGACATGGAGATGTTGGTCAAGGAAAAGGgtaaatgtcttgtcttgtgacacattgatgcctcacagttttggtgtttctatccctttagtttccctgctaagatgaaactgagtgcatatatctctaaattttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA