Sequence
atgc intronic sequence ATGC exonic sequenceGCTCACTGGGAAGCCATTGTTTCCTGGGAAGAATGTGGTGCACCAATTGGATATTATGACTGATTTGCTTGGTACTCCTCCTCCCGAAGCTATTGCAAGGgttagttggtagagttatctatttctgtttgctaaaacttgcatgctagaatttctgtgatgtcttatgacttatgaattaaaagttttataaaccatga...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G18040.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G18040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 5
GCTCACTGGGAAGCCATTGTTTCCTGGGAAGAATGTGGTGCACCAATTGGATATTATGACTGATTTGCTTGGTACTCCTCCTCCCGAAGCTATTGCAAGGgttagttggtagagttatctat------ttctgtttgctaaa-acttgcatgctagaatttctgtgatgtcttatgacttatgaattaaaagttttataaaccatga
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GCTCACAGGGAAGCCACTCTTTCCAGGGAAGAATGTTGTGCATCAGTTGGATCTTATGACTGATCTACTTGGTACACCTTCAGCAGAGTCTATCTCCAAGgtatgctcact-agttactaatgagaccttaatctcactagttactaacgagtctcattttctgt-attccaggcagtactctgtttcagatttttaggtac-----
upper sequence: AT3G18040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G33980.1 (Glycine max), 5'ss of exon 5
GCTCACTGGGAAGCCATTGTTTCCTGGGAAGAATGTGGTGCACCAATTGGATATTATGACTGATTTGCTTGGTACTCCTCCTCCCGAAGCTATTGCAAGGgttagttggtagagttatctatttctgtttgctaaaacttgcatgctagaatttctgtgatgtcttatgacttatgaattaaaagttttataaaccatga-
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GCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGGATCTCATGACTGATTTGCTTGGGACTCCTCCTCCTGAGTCCATTGCAAGGgttagtatatcaaaatctaatttgaagttttctgaaatcaat-tgtgcaggcttgtgacatggtataatgggagtaattctaaatttccaatgttcctttt
upper sequence: AT3G18040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G05700.1 (Glycine max), 5'ss of exon 5
GCTCACTGGGAAGCCATTGTTTCCTGGGAAGAATGTGGTGCACCAATTGGATATTATGACTGATTTGCTTGGTACTCCTCCTCCCGAAGCTATTGCAAGGgttagttggtagagttatctatttctgtttgctaaaacttgcatgctagaatttctgtgatgtcttatgacttatgaattaaaagttttataaaccatga-
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GCTCACTGGGAAGCCATTGTTTCCTGGGAAAAATGTTGTGCACCAATTGGATCTCATGACTGATTTGCTTGGCACACCTCCTCCTGAGTCCACTGCAAGGgtcagtatatcaaaatctaatttgaagttttctgaaatcaat-tgcgcaggcttgtgacatggtttaattggagtaattctaaatttccaatgttcctttt
upper sequence: AT3G18040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G30790.1 (Glycine max), 5'ss of exon 5
GCTCACTGGGAAGCCATTGTTTCCTGGGAAGAATGTGGTGCACCAATTGGATATTATGACTGATTTGCTTGGTACTCCTCCTCCCGAAGCTATTGCAAGGgttagttggtagagttatctatttctgtttgctaaaacttgcatgctagaatttctgtgatgtcttatgacttatgaattaaaagttttataaaccatga-----
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GCTCAGTGGGAAGCCATTGTTTCCTGGAAAAAATGTAGTGCACCAATTGGATCTCATAACTGACCTTCTTGGTACTCCTCCTGCTGAAACCATTTCTAGGgtcagttcatccaaatctattctacatttttttaacatcaatagg-taaaattgtggcaagctgtaatggctaatgacattaa----ttctaagcttctattttt
upper sequence: AT3G18040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA07G11470.1 (Glycine max), 5'ss of exon 5
GCTCACTGGGAAGCCATTGTTTCCTGGGAAGAATGTGGTGCACCAATTGGATATTATGACTGATTTGCTTGGTACTCCTCCTCCCGAAGCTATTGCAAGGgttagttggt--agagttat-ctatttctgtttgctaaaacttgcatgcta--gaatttctgtgatgtcttatgacttatgaattaaaagttttataaaccatga
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GCTCAGTGGGAAGCCATTGTTTCCTGGAAAAAATGTAGTGCACCAATTGGATCTCATAACCGACCTTCTTGGTACTCCTCCTGCTGAAACCATTTCTAGGgtcagtttatccaaatctattctacattttttaacatcaataggtaaacttatgacaggctgtaatggctaatgatat-taattctaagcttctatttttc----
upper sequence: AT3G18040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv01s0011g04920.t01 (Vitis vinifera), 5'ss of exon 5
GCTCACTGGGAAGCCATTGTTTCCTGGGAAGAATGTGGTGCACCAATTGGATATTATGACTGATTTGCTTGGTACTCCTCCTCCCGAAGCTATTGCAAGGgttagttggtagagttatctatttctgtttgctaaaacttgcatgctagaatttctgtgatgtcttat--gacttatga-attaaaagttttataaaccatga----------------------------------------------
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GCTTACTGGAAAGCCCTTGTTTCCTGGTAAAAATGTGGTCCAGCAATTGGATCTGATGACTGATTTGCTTGGCACCCCTTCTTATGAATCTATTGCGAGGgtatgttctcaattttcagttggttttccttctagggaaactagtcatgattttaagcagtagcctctctgagttttaatgttacatttattctaaactaggatgtgctcttgttttctaatgattttcatcttttacaatgcctgcag
upper sequence: AT3G18040.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 5'ss of exon 5
GCTCACTGGGAAGCCATTGTTTCCTGGGAAGAATGTGGTGCACCAATTGGATATTATGACTGATTTGCTTGGTACTCCTCCTCCCGAAGCTATTGCAAGGgttagttggtagagttatctatttctgtttgctaaaacttgcatgctagaatttctgtgatgtcttatgacttatgaattaaaagttttataaaccatga---
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GCTTACAGGAAAACCGCTGTTTCCGGGGAAAAATGTAGTGCACCAGTTGGATCTCATGACTGATTTGCTTGGCACTCCTTCTGCTGAATCAATCGCAAGGgttagtta-tctcattctaattctgttttttctggtcactaattgacagactgattgt-atgttcca-agtggacactctctgaatttggttagctttcttttMapped 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|124956904|gb|EL031783.1|EL031783EST: ATATTATGACTGATTTGCTTGGTACTCCTCCTCCCGAAGCTATTGCAAGG ATTCGTAATGAAAAGGCGAGGAGATATCTCGGCAATATGAGGAGAA
genomic: ATATTATGACTGATTTGCTTGGTACTCCTCCTCCCGAAGCTATTGCAAGGgttagttggt ... gttgttgcagATTCGTAATGAAAAGGCGAGGAGATATCTCGGCAATATGAGGAGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTCACTGGGAAGCCATTGTTTCCTGGGAAGAATGTGGTGCACCAATTGGATATTATGACTGATTTGCTTGGTACTCCTCCTCCCGAAGCTATTGCAAGGgttagttggtagagttatctatttctgtttgctaaaacttgcatgctagaatttctgtgatgtcttatgacttatgaattaaaagttttataaaccatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC