Sequence
atgc intronic sequence ATGC exonic sequenceTAGAGTTTTTTTATATTAAATGGGTTGGAGATACAAAGCTGGTCTGTTCTTGATTGGCACTGTTGTTATCATATGGGTCACCTCCGCTGAAGTTACTCAGgtattcattcattgtctcttcaattttgtttaaagctttcatcttttgaggttatggatgtttcatttggatcttattccattaggcttgttttcaatca...
Basic information
species | Arabidopsis thaliana |
transcript | AT4G32140.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G32140.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA06G07010.1 (Glycine max), 5'ss of exon 1
TAGAGTTTTTTTATATTAAATGGGTTGGAGATACAAAGCTGGTCTGTTCTTGATTGGCACTGTTGTTATCATATGGGTCACCTCCGCTGAAGTTACTCAGgtat-tcattcattgtctcttcaattttgtttaaagctttcatcttttgaggtta-tggatgtttcatttggatcttattccattaggcttgttttcaatca
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-------------------ATGGGTTGGAGATACAACGCTGGATTGTTCCTCATAGTCACTGTTGTTATTATTTGGGTCACCTCCGCCGAAGTTACCCAGgtaccttacgcattcctagtcctagtcctatcacacaatcaaaaacaggatgcaagttaatgtttgacttg-atttgactttat-gttcaaacctccaaaat
upper sequence: AT4G32140.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA04G06930.1 (Glycine max), 5'ss of exon 2
TAGAGTTTTTT-TATATTAAATGGGTTGGAGATACAAAGCTGGTCTGTTCTTGATTGGCACTGTTGTTATCATATGGGTCACCTCCGCTGAAGTTACTCAGgtat-tcattcattgtctcttcaattttgtttaaagctttcatcttttgaggtta-tggatgtttcatttggatcttattccattaggcttgttttcaatca
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-AGTTTCTCTTGTTTGTGGGATGGGGTGGAGATACAACGCTGGTTTGTTCCTCATAGTCACTGTCGTTATTATTTGGGTCACCTCCGCCGAAGTTACCCAGgtacgtaacacattatttttctaatgccaatccctagttgaatggtggcaaattaattaattcctaagtcctatctcac-caatcaagttaatgtttgact-
upper sequence: AT4G32140.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA14G14010.1 (Glycine max), 5'ss of exon 1
TAGAGTTTTTTTATATTAAATGGGTTGGAGATACAAAGCTGGTCTGTTCTTGATTGGCACTGTTGTTATCATATGGGTCACCTCCGCTGAAGTTACTCAGgtattcattcattgtctcttcaattttgtttaaagctttcatcttttgag----gttatggatgt--ttcatttggatcttattccattaggcttgttttcaatca
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CTGGGTGTAGTTTTTTGCTATGGGGTGGAGATACAAGGCAGGGTTGTTCCTCATACTTACTGTGGTTGTCATATGGGTCACCTCTGCTGAAGTCACCCAGgta---aaattttgccaattccatgctgcc-aaatttaccctttttcaagcttctttaggcatgtaatttgattggattttgttgagtctggagtgattgtttt--
upper sequence: AT4G32140.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv04s0008g06500.t01 (Vitis vinifera), 5'ss of exon 1
TAGAGTTTTTTTATATTAA--ATGGGTTGGAGATACAAAGCTGGTCTGTTCTTGATTGGCACTGTTGTTATCATATGGGTCACCTCCGCTGAAGTTACTCAGgtattcattcattgtctcttcaattttgtttaaagctttcatcttttgaggttatggatgtttcatttggatcttattccattaggcttgttttcaatca
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--GGGTCTTGTTCGATTCATTATGAGTTGGAAGTATAGGGCTGGTTTGTTCTTGATTGCTGCTGTTGTCGTTATATGGGTCACCTCCGCAGAAGTCACCCAGgtctgttttttctttttgtttcctttcctcagagcgttttgcccatttggtttgttggtttctgttgttgattcatagtgatgcgttttgtttgtgtttgMapped 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|124902978|gb|EH977058.1|EH977058EST: TGATTGGCACTGTTGTTATCATATGGGTCACCTCCGCTGAAGTTACTCAG GATATCTTTACAGCCTATAAGCAGCCATTTGCAGT
genomic: TGATTGGCACTGTTGTTATCATATGGGTCACCTCCGCTGAAGTTACTCAGgtattcattc ... ttttgaccagGATATCTTTACAGCCTATAAGCAGCCATTTGCAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAGAGTTTTTTTATATTAAATGGGTTGGAGATACAAAGCTGGTCTGTTCTTGATTGGCACTGTTGTTATCATATGGGTCACCTCCGCTGAAGTTACTCAGgtattcattcattgtctcttcaattttgtttaaagctttcatcttttgaggttatggatgtttcatttggatcttattccattaggcttgttttcaatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG