Sequence
atgc intronic sequence ATGC exonic sequenceCAAGGAGAGCTCACAAAGTGAAGAAGCACCGAAAGAAAACTACATTCATATGAGGGCAAGAAGAGGTCAAGCCACTAATAGTCACAGTCTTGCAGAGCGGgtaaggactcttttacctgtatatagattatgagaatctgctctttgttttctgccaattactggtgctgagaagtttgctatttcttttgttgttttgaag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G10120.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G10120.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA0041S00210.1 (Glycine max), 5'ss of exon 2
---------------------------------------------------CAAGGAGAGCTCACAAAGTGAAGAAGCACCGAAAGAAAACTACATTCATATGAGGGCAAGAAGAGGTCAAGCCACTAATAGTCACAGTCTTGCAGAGCGGgta--aggactcttttacctgtatatagattatgagaatctgctctttgttttctgccaattactggtgctgagaagtttgctatttcttttgttgttttgaag
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GAATAATGGCGCAGATGTGCGTGGCAAGCAATCAGTGAAGCAAGCTAAAGACAACAATAATTCTCAAAGTGGAGAAGCTCCCAAAGAAAATTTCATTCACgtgagagctagaagaggtcaagccactaacagccacagccttgcagaaagagtaccatccctatctcaccacgatatttgctatgagaaagttagaaaacccttttttttgttgt--atgtctaatgatacaactttttgctcgcag--------
upper sequence: AT1G10120.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA14G10180.1 (Glycine max), 5'ss of exon 2
CAAGGAGAGCTCACAAAGTGAAGAAGCACCGAAAGAAAACTACATTCATATGAGGGCAAGAAGAGGTCAAGCCACTAATAGTCACAGTCTTGCAGAGCGGgtaaggactcttttacctgtatatagattatga-gaatctgctctttgttttctgccaattactggtgctgagaagtttgctatttcttttgttgttttgaag
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AGACAACAATTCTCAAAGTGGAGAAGCTCCCAAAGAAAATTTCATTCACGTGAGAGCTAGAAGAGGTCAGGCCACAAATAGCCACAGCCTTGCAGAAAGAgtaccatccctatc-tcaaaatatttgttatgataaagttagaaaatccctttttttttttgtatgt-ctaatgatacaacttttttgcttgcag--------
upper sequence: AT1G10120.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA04G05090.1 (Glycine max), 5'ss of exon 4
CAAGGAGAGCTCACAAAGTGAAGAAGCACCGAAAGAAAACTACATTCATATGAGGGCAAGAAGAGGTCAAGCCACTAATAGTCACAGTCTTGCAGAGCGGgtaaggactcttttacctgtatatagattatgagaatctgctctttgttttctgccaattactggtgctgagaagtttgctatttcttttgttgttttgaag
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GAAAGATGACTCCGAGAGTGAAGAAGGTTCCAAAGAAAATTTCATTCATGTGAGAGCCCGAAGAGGTCAAGCTACAAACAGTCACAGCCTTGCAGAAAGGgtaaccatcatcttaacacattaatgtttattactagaaacccgctttttattgataa--attagagttataacactttttgtttgcag-------------
upper sequence: AT1G10120.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv18s0001g08600.t01 (Vitis vinifera), 5'ss of exon 2
CAAGGAGAGCTCACAAAGTGAAGAAGCACCGAAAGAAAACTACATTCATATGAGGGCAAGAAGAGGTCAAGCCACTAATAGTCACAGTCTTGCAGAGCGGgtaaggactcttttacctgtat-atagattatgagaatctgctctttgttttctgccaattactggtgctgagaagtttgctatttcttttgttgttttgaag
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TAAAGACAATTCTAGCAATGGAGAAGCTCCTAAAGAAAATTACATTCACGTGAGGGCCAGAAGGGGCCAGGCGACTAATAGTCACAGCCTTGCTGAAAGGgtatcttcttgctattatgcattaaatgttatgaaagac----ctctgctttctgatgtat-cttgaacctagatgttttatgtttgcag-------------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|19876968|gb|AU237799.1|AU237799EST: TGAGGGCAAGAAGAGGTCAAGCCACTAATAGTCACAGTCTTGCAGAGCGG GTTAGAAGAGAAAAGATCAGTGAAAGGATGAGATTGCTTCAAGAACTTGTT
genomic: TGAGGGCAAGAAGAGGTCAAGCCACTAATAGTCACAGTCTTGCAGAGCGGgtaaggactc ... tgttttgaagGTTAGAAGAGAAAAGATCAGTGAAAGGATGAGATTGCTTCAAGAACTTGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAAGGAGAGCTCACAAAGTGAAGAAGCACCGAAAGAAAACTACATTCATATGAGGGCAAGAAGAGGTCAAGCCACTAATAGTCACAGTCTTGCAGAGCGGgtaaggactcttttacctgtatatagattatgagaatctgctctttgttttctgccaattactggtgctgagaagtttgctatttcttttgttgttttgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG