Sequence
atgc intronic sequence ATGC exonic sequenceAGAAAGAGTTTTATGATGACAGAGAGGAATGTCGGGAAGCATTACAATACGTTGATGAGCTTCACCAAGCTGGAATAGACACAAGCGAGTTCCCATGGCGgtaagtagaaccgtaacagctaaaacaaccaacgataaccaaagtttctaatctgtgaagagttgctgaaacttgtcaagatgcttcacgatcactaatctgttcttccttgtattactgtgcttctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G63680.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G63680.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G009070_T01 (Zea mays), 5'ss of exon 4
AGAAAGAGTTTTATGATGACAGAGAGGAATGTCGGGAAGCATTACAATACGTTGATGAGCTTCACCAAGCTGGAATAGACACAAGCGAGTTCCCATGGCGgtaagtagaaccgtaacagctaaaacaaccaacgataaccaaagtttctaatctgtgaagagttgctgaaacttgtcaagatgcttcacgatcactaatctgttcttccttgtattactgtgcttctgcag
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AAAATGAATTTTTTGATGACAGAGAAGAGTGCCGAGAAGCATTACAATACGTCGATCAATTGCACCGAGCTGGAATAGACACCTCAGAGTTCCCTTGGCGgta--------tgtttcctctaaa----tcattagttactagg-----tcatctttcatgagtttggacttatcgccagattactgagccatttcaaaaacctttctccaatcatta--------------
upper sequence: AT1G63680.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G01850.1 (Glycine max), 5'ss of exon 4
AGAAAGAGTTTTATGATGACAGAGAGGAATGTCGGGAAGCATTACAATACGTTGATGAGCTTCACCAAGCTGGAATAGACACAAGCGAGTTCCCATGGCGgtaa-gtagaaccgtaacagctaaaacaaccaacgataac----caaagtt---tctaatctgtgaaga--gttgctgaaacttgt--caagatgcttcacgatcactaatctgttcttccttgtattactgtgcttctgcag--------------------------------------
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AAAAGGAATTCTTTGATGATCGAGAAGAGTGCCGAGAGGCATTGCAGTATGTTGATGAGCTTCACCAAGCTGGAATAGATACAAGTGAATTTCCATGGCGgtaatgccaaatgttttcctcttcaatgcccttttgtaacttgacaaggctggtttttggcaattaagaccacacctgtcacctgtaacaaaataaacaaaagaaaaagaaaaacacagaattgtcatgtgttgctcattaaaaagaatggcatgtttatttcgtttttgtcttatcgcag
upper sequence: AT1G63680.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G37740.1 (Glycine max), 5'ss of exon 5
AGAAAGAGTTTTATGATGACAGAGAGGAATGTCGGGAAGCATTACAATACGTTGATGAGCTTCACCAAGCTGGAATAGACACAAGCGAGTTCCCATGGCGgtaa-gtagaaccgtaacagctaaaacaaccaacgataac----caaagtttctaatctgtga--------agagttgc--tgaaacttgtcaagatgcttcac-gatcactaatctgttcttccttgta----ttactgtgcttctgcag-----------------
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AGAAGGAATTCTTTGATGATCGAGAAGAGTGCCGAGAGGCATTGCAGTATGTTGATGAGCTTCACCAAGCTGGAATAGATACAAGTGAATTTCCATGGCGgtaatatcaaatgttttcctcttcaatgcccttttgtaacttgacaaggctggttattggcaattaagaccacacctgcaacaaaataaataaaagaaaaacacagaattgtcatgtgttacccatgaaaaagaataacatgtttatttcgtttttgtcttgtcgcag
upper sequence: AT1G63680.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv02s0025g03410.t01 (Vitis vinifera), 5'ss of exon 4
AGAAAGAGTTTTATGATGACAGAGAGGAATGTCGGGAAGCATTACAATACGTTGATGAGCTTCACCAAGCTGGAATAGACACAAGCGAGTTCCCATGGCGgtaagtagaaccgtaacagctaaaacaaccaacgataaccaaa-gtttctaatctgtgaag--agttgctgaaacttgtcaagatgcttcacgatcactaatctgttcttccttgtattactgtgcttctgcag
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AAAAGGAGTTCTTTGATGATCGGGAGGAATGCCGTGAAGCATTGCAGTATGTTGATGAGCTTCATCAAGCTGGAATAGACACGAGTGAATTTCCATGGCGgtaagtt--attttagctactattgctgttgc--atactgaaatgtcctttatttatgataccggtatctcagtcggagccactttctcctc-ataaggaaccta-----------------------------Mapped 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|124807143|gb|EH893580.1|EH893580EST: TTCCCATGGCG GTTACCAGAGAGTCATTAATATCTCTGTGGTGAAATCATTAGAAGAGAAGT
genomic: TTCCCATGGCGgtaagtagaa ... gcttctgcagGTTACCAGAGAGTCATTAATATCTCTGTGGTGAAATCATTAGAAGAGAAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAAAGAGTTTTATGATGACAGAGAGGAATGTCGGGAAGCATTACAATACGTTGATGAGCTTCACCAAGCTGGAATAGACACAAGCGAGTTCCCATGGCGgtaagtagaaccgtaacagctaaaacaaccaacgataaccaaagtttctaatctgtgaagagttgctgaaacttgtcaagatgcttcacgatcactaatctgttcttccttgtattactgtgcttctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA