Sequence
atgc intronic sequence ATGC exonic sequenceGAGAAGAATGCTGCTCTATTAACGGCTAGAGCTGGTGCAAGAGATCCATCGGCAATACCATCTATATGTCGCATTTCTGCTGCCCTTCAATATCCTGCAGgtaagatttttttcttcgtttttttttcaaaaatccaaggacgtatagttcatctctctggacaaaaattatttgcattgacaaggagctttttaatgaa...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G38880.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G38880.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G055917_T02 (Zea mays), 5'ss of exon 7
GAGAAGAATGCTGCTCTATTAACGGCTAGAGCTGGTGCAAGAGATCCATCGGCAATACCATCTATATGTCGCATTTCTGCTGCCCTTCAATATCCTGCAGgtaag----atttttttcttcgtttttttttcaaaaatccaaggacgtatagttcatctctctggacaaaaattatttgcattgacaaggagctttttaatgaa
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GAGAAACATGCAGCTCTGTTAACTGCAAGAGCTGGTGCTAGAGATCCATCTGCTGTGCCATCTATATGCCGCATCTCTGCTGCTCTTCAGTATAATTTTGgtatgttcagttgtactggcaatgttatgtgttttggttcaggaatacata--tgatcttttatgtcataaaccatgctaacctattatgcatgagtgtgtc--
upper sequence: AT5G38880.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G116196_T01 (Zea mays), 5'ss of exon 7
GAGAAGAATGCTGCTCTATTAACGGCTAGAGCTGGTGCAAGAGATCCATCGGCAATACCATCTATATGTCGCATTTCTGCTGCCCTTCAATATCCTGCAGgtaagatttttttcttcgtttttttttcaaa----aatccaaggacgtatagttcatctctctggacaaaaattatttgcattgacaaggagctttttaatgaa
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GAGAAACATGCAGCTTTGTTGACTGCAAGAGCTGGTGCCAGAGATCCATCTGCTGTGCCGTCTATATGCCGCATCTCTGCTGCTCTTCAGTATAACTTTGgtatggtcagtcatactgacattgttatgtgttttgattcaggaatgctta--tgatcttttatgtcataaactatgttaacctattata--catagaagtgtc
upper sequence: AT5G38880.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA08G27740.1 (Glycine max), 5'ss of exon 7
GAGAAGAATGCTGCTCTATTAACGGCTAGAGCTGGTGCAAGAGATCCATCGGCAATACCATCTATATGTCGCATTTCTGCTGCCCTTCAATATCCTGCAGgtaagatttttttcttcgtttttttttcaaaaatccaaggacgtatagttcatctctctggacaaaaattatttgcattgacaaggagctttttaatgaa--
|| | | ||| ||| | || || || ||||||||||| | |||||||| ||||| ||||| ||||||||| |||| ||||| ||||| |||||||| ||| || | ||||| | | ||| | | | | ||| | | | | | | | ||| | | |||| ||| || ||| ||
GAAATAAGTGCAGCTATTTTGACAGCAAGAGCTGGTGCTCGGGATCCATCAGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCTGgtgagtatattttcgtttgtgatttgctgatagtttcctgttgtacactgtacccatatcag-attggttaatag-attgccaatttgccatttgtaaaatg
upper sequence: AT5G38880.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA18G50960.1 (Glycine max), 5'ss of exon 7
GAGAAGAATGCTGCTCTATTAACGGCTAGAGCTGGTGCAAGAGATCCATCGGCAATACCATCTATATGTCGCATTTCTGCTGCCCTTCAATATCCTGCAGgtaag-atttttttcttcgtttttttttca-aaaatccaaggacgtatagttcatctctctggacaaaaatta--tttgcattgacaaggagctttttaatgaa
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GAAATAAGTGCAGCTATGTTGACAGCAAGAGCTGGTGCTCGGGATCCATCAGCAATTCCATCAATATGTCGCGTTTCAGCTGCACTTCACTATCCTGCGGgtgagtatattattgtttgtgatttgctgatagtttcctggtgtacactgtacccatatcagatcggttaatagattgccattgtaaaatgtcacttcag----
upper sequence: AT5G38880.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv14s0083g00990.t01 (Vitis vinifera), 5'ss of exon 7
GAGAAGAATGCTGCTCTATTAACGGCTAGAGCTGGTGCAAGAGATCCATCGGCAATACCATCTATATGTCGCATTTCTGCTGCCCTTCAATATCCTGCAGgtaagatttttttcttcgtttttttttcaaaaatccaaggacgtatagttcatctctctggacaaaaattatttgcattgacaaggagctttttaatgaa----
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GAAAAAAATGCTGCTTTGTTAACTGCAAGAGCTGGTGCCAGGGATCCATCAGCAATTCCATCCATATGCCGAGTTTCTGCTGCTCTTCAATATCCTGCTGgtaagttttttgtttacctaagttt---aagcatgcattggtgt-tggtggatagtgtattataggctatagatatgatgctcagtaacctttttggacaataaMapped 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|125274465|gb|EL288550.1|EL288550EST: GGCAATACCATCTATATGTCGCATTTCTGCTGCCCTTCAATATCCTGCAG GTCTTGAGGGTTCAGATGCAAGTTTGGCCTCAGTGTTAGAGT
genomic: GGCAATACCATCTATATGTCGCATTTCTGCTGCCCTTCAATATCCTGCAGgtaagatttt ... gcttgaatagGTCTTGAGGGTTCAGATGCAAGTTTGGCCTCAGTGTTAGAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGAAGAATGCTGCTCTATTAACGGCTAGAGCTGGTGCAAGAGATCCATCGGCAATACCATCTATATGTCGCATTTCTGCTGCCCTTCAATATCCTGCAGgtaagatttttttcttcgtttttttttcaaaaatccaaggacgtatagttcatctctctggacaaaaattatttgcattgacaaggagctttttaatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaaaaa