Sequence
atgc intronic sequence ATGC exonic sequenceGCTGGCCGATTTGGTGAAAAAGAAGAAAAAGCTGCAGAATTGGCTTGATTACTACCAGCTCAAATACGCTAGGAATAACTCTCAGAGAATTATGGTGAAGgtacttcagtttaaatctcaaactttgtttttttttgtgttctgttaaactgacccgttccatgctttcctccaccaaccag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G22120.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G22120.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os05g51630.2 (Oryza sativa), 5'ss of exon 5
GCTGGCCGATTTGGTGAAAAAGAAGAAAAAGCTGCAGAATTGGCTTGATTACTACCAGCTCAAATACGCTAGGAATAACTCTCAGAGAATTATGGTGAAGgta---cttcagtttaaatctcaaac--tttgttttttttt----gtgttctgttaaact--gacccgttccatgctt--tcctccaccaaccag-----------------
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ACTTGCTGATCTGGTTGAGAAGAAGAAGAAACTGCAAAATTGGCTTGATTACTACCAGCTCAAGTATGAAAGAAATCCATCAAAAAGGCCCACCACTAAGgttagtctgccatatggaccttgatcaatttatttttcatttcaattataatattacattaggatcttttttctttttaattctctgtccccctgttggatttttgttccag
upper sequence: AT4G22120.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os01g35050.3 (Oryza sativa), 5'ss of exon 6
GCTGGCCGATTTGGTGAAAAAGAAGAAAAAGCTGCAGAATTGGCTTGATTACTACCAGCTCAAATACGCTAGGAATAACTCTCAGAGAATTATGGTGAAGgtacttcagtttaaatctcaaactttgtttttttttgtgttctgttaaactgacccgttccatgctttcctccaccaaccag------------------------------------------------------------
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GCTTGATAAGATGGTCAAAGAGAAGAAGAAAATGCAGAATTGGCTTGATTACTATCAGCTGAAATATGAAAGAAATACATCTCAAAGGCCTACTACAAAGgttgttg---ctaaattt--gatcatgttaatctctttacttctcttacacagttcttgttgtttttatcaaaacaaaaaagaataatttttatttatgattccttatttattcttcttatttttctatacttcttttccag
upper sequence: AT4G22120.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA07G39320.1 (Glycine max), 5'ss of exon 6
---GCTGGCCGATTTGGTGAAAAAGAAGAAAAAGCTGCAGAATTGGCTTGATTACTACCAGCTCAAATACGCTAGGAATAACTCTCAGAGAATTATGGTGAAGgtacttcagtttaaatctca---aacttt----gtttttttttgtgttctgttaaactgacccgttccatgctttcctccac---caaccag
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CAAACTTGCAAAGTTGGTTAAAAAGAAGAAGAAGTTGCAGAATTGGCTTGTATATTATCAAAACAAA---GTTGAAAGAACTTCAGAAAGGCCTCAAATAAAGgtattt-aattttaatctgacatggcttcaaaagtttgtcgtggccatct-tcagatttactgcaatctttctctcttgtatgttttactag
upper sequence: AT4G22120.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA17G01400.1 (Glycine max), 5'ss of exon 5
---GCTGGCCGATTTGGTGAAAAAGAAGAAAAAGCTGCAGAATTGGCTTGATTACTACCAGCTCAAATACGCTAGGAATAACTCTCAGAGAATTATGGTGAAGgtacttcagtttaaatctca---aacttt----gtttttttttgtgttctgttaaactgacccgttccatgctttcctccac---caaccag
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CAAACTTGCAAAGTTGGTTAAAAAGAAGAAGAAGTTGCAGAATTGGCTTGTATATTATCAAAACAAA---GTTGAAAGAACTTCAGAAAGGCCTCAAATAAAGgtatttaatttttaatatgacatggcttcagaagtttgtcataaccatct-tcagatttactacaatctttctctcttgtatgttttactagMapped 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|116414733|gb|EG457325.1|EG457325EST: ACTACCAGCTCAAATACGCTAGGAATAACTCTCAGAGAATTATGGTGAAG CTTGGCTTTCTTGGGCTATGGGGACAAAAAGTCGATGCCATTGAACATTAC
genomic: ACTACCAGCTCAAATACGCTAGGAATAACTCTCAGAGAATTATGGTGAAGgtacttcagt ... caccaaccagCTTGGCTTTCTTGGGCTATGGGGACAAAAAGTCGATGCCATTGAACATTAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTGGCCGATTTGGTGAAAAAGAAGAAAAAGCTGCAGAATTGGCTTGATTACTACCAGCTCAAATACGCTAGGAATAACTCTCAGAGAATTATGGTGAAGgtacttcagtttaaatctcaaactttgtttttttttgtgttctgttaaactgacccgttccatgctttcctccaccaaccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA