Sequence
atgc intronic sequence ATGC exonic sequenceTTGGAAAGTTTCTGGAACTTAGCTTTTCGAATCATGCAACTGCGAATCGTGTTGCATCTTGCGGTCATTCGCTTCAAAGAGACTGCCTTCGATTCTATGGgtaaacgcaggctgtataatatcattctcttacagttatctcaatgctgttacactaataatattatgatttgttttgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G71010.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G71010.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os06g14750.1 (Oryza sativa), 5'ss of exon 6
TTGGAAAGTTTCTGGAACTTAGCTTTTCGAATCATGCAACTGCGAATCGTGTTGCATCTTGCGGTCATTCGCTTCAAAGAGACTGCCTTCGATTCTATGGgtaaacgcaggctgtataatatcattctcttacagttatctcaatgctgttacactaataatattatgatttgt-tttgtag
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TTGGGAAGTTTTTGGAACTTAGCTTTTCGAATCACACAACGGCCAACCGGGTTGCCTCCTGTGGACATTCCCTTCAGAGGGACTGCCTTCGTTTTTATGGgtatgtg--------attatttc-ttgtggtaaacttgagtcaaggccaatgta--aaaaatgttattattttcatctacag
upper sequence: AT1G71010.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA20G01680.1 (Glycine max), 5'ss of exon 10
TTGGAAAGTTTCTGGAACTTAGCTTTTCGAATCATGCAACTGCGAATCGTGTTGCATCTTGCGGTCATTCGCTTCAAAGAGACTGCCTTCGATTCTATGGgtaaac---gcaggctgtataatatcattct-cttacagttatctcaatgctgtt--------acactaataatattatgatttgttttgtag-------
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TTGGAAAGTTCTTGGAACTTAGCTTTTCAAACCATGCAACTGCAAATCGAGTTGCAACCTGTGGACATTCTTTGCAGAGGGATTGCCTCCGTTTCTATGGgtaaatcatccagacaaggaatcaccaatcaattttttgttatgtaatttgtgttggttatcaatacttgaaaggtaacaaacaaccttatgtgtaacag
upper sequence: AT1G71010.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA07G34030.2 (Glycine max), 5'ss of exon 7
TTGGAAAGTTTCTGGAACTTAGCTTTTCGAATCATGCAACTGCGAATCGTGTTGCATCTTGCGGTCATTCGCTTCAAAGAGACTGCCTTCGATTCTATGGgtaaac---gcaggctgtataatatcattct-cttacagttatctcaatgctgtt--------acactaataatattatga----tttgttttgtag---
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TTGGAAAGTTCTTGGAACTTAGCTTTTCTAACCATGCAACTGCAAATCGAGTTGCAACCTGTGGACATTCTTTGCAGAGGGATTGCCTCCGTTTTTATGGgtaaatcatccagacaaggaatcaccaatcaattttttgttatgtaatttgtgttggtcatcaatacttgaaaggtgacaaacaacctgatgtgtaacag
upper sequence: AT1G71010.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv01s0011g04790.t01 (Vitis vinifera), 5'ss of exon 6
TTGGAAAGTTTCTGGAACTTAGCTTTTCGAATCATGCAACTGCGAATCGTGTTGCATCTTGCGGTCATTCGCTTCAAAGAGACTGCCTTCGATTCTATGGgtaaacgcaggc---tgtataatatcattc---tcttacagttatctcaatgctgttacactaataat-----attatgatttgttttgtag
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TTGGAAAGTTCTTGGAGCTTAGCTTTTCAAACCATGCAACTGCTAATCGTGTTGCAACTTGTGGTCATTCTTTACAAAGGGACTGCCTCCGTTTCTATGGgtatatgccattaaatttgtaattcgatgtcaattttctaattgt-tgggtgtgattatgatgattgttggaagctttcatttttcttacagMapped 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|124964572|gb|EL038824.1|EL038824EST: ACTGCCTTCGATTCTATGG ATTTGGTAACATGGTGGCATTCTTTAGATATTCTCCCATCAATATACTTAC
genomic: ACTGCCTTCGATTCTATGGgtaaacgcag ... tgttttgtagATTTGGTAACATGGTGGCATTCTTTAGATATTCTCCCATCAATATACTTAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGGAAAGTTTCTGGAACTTAGCTTTTCGAATCATGCAACTGCGAATCGTGTTGCATCTTGCGGTCATTCGCTTCAAAGAGACTGCCTTCGATTCTATGGgtaaacgcaggctgtataatatcattctcttacagttatctcaatgctgttacactaataatattatgatttgttttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA