Sequence
atgc intronic sequence ATGC exonic sequenceAGAGACTGAGGTTGTGCATGTGATCTGGGATGGGATAATGAATGCTGTTCAATGGTCTGGGAAAAACCAGCAGCAGAATTCGAATGCTGTATTACGCCAAgtgagttgattttctattttattttgaagcaagattatgttgttttgttcaaagctaagctaagctagccgctgttttgtggtag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G65220.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G65220.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM5G877316_T02 (Zea mays), 5'ss of exon 6
AGAGACTGAGGTTGTGCATGTGATCTGGGATGGGATAATGAATGCTGTTCAATGGTCTGGGAAAAACCAGCAGCAGAATTCGAATGCTGTATTACGCCAAgtga---gttgattttctattttattttgaag--caagattatgttgttttgt-tcaaagctaagctaagctagccgctgtt--ttgtggtag-------
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TGATCTAGAGGTCATTCGCATGTTGTGGGATGTGCTCATGGAGGCTGTTCAGTGGTCTGGGAAGAACCAGCAACAGAATTCTAATGCAGCACTTCGGCAGgtaacgtgttgaagttttggtttgtttccaaggccaagaactggacattgaatgcctaacataaactcgaatgccttacattgcttgttttggcacctta
upper sequence: AT1G65220.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G012416_T04 (Zea mays), 5'ss of exon 6
AGAGACTGAGGTTGTGCATGTGATCTGGGATGGGATAATGAATGCTGTTCAATGGTCTGGGAAAAACCAGCAGCAGAATTCGAATGCTGTATTACGCCAAgtga----gttgattttctattttattttgaagcaagat----------tatgttgttttgttcaaagctaagctaagctagccgctgttttgtggtag-
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TGATTTAGAGGTTATTCGCATGTTGTGGGATGTGCTCATGGAGGCTGTTCAGTGGTCTGGGAAGAACCAGCAGCAAAATTCCAATGCAGCACTTAGGCAGgtagtgttgttaaacttttgctttctttacaagtacattgagtacctaacatgaactcttgttgatgtatgacttacattacttgttttagtacttttaa
upper sequence: AT1G65220.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv04s0023g00670.t01 (Vitis vinifera), 5'ss of exon 7
AGAGACTGAGGTTGTGCATGTGATCTGGGATGGGATAATGAATGCTGTTCAATGGTCTGGGAAAAACCAGCAGCAGAATTCGAATGCTGTATTACGCCAAgtgag---ttgattttctattt---tattt-tgaagcaagattatgt---tgttttgttcaaagctaagctaagctagccgctgttttgtggtag------
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AGACATTGAGGTTGTGCGAATCTTGTGGGATGTCATAATGGATGCAGTTCAGTGGTCTGGGAAAAACCAGCAGCAGAATGCCAATGCAGCTCTACGCCAGgtatgcttttggtgtattatttctttatttctgtaccaaaaacatttaaatgttctatattcatatttgcttgtataga-gtgattgagccaaagatattgMapped 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|86079371|gb|DR375128.1|DR375128EST: AATGGTCTGGGAAAAACCAGCAGCAGAATTCGAATGCTGTATTACGCCAA GTGAAAACATGGGCACCCCTTCTGAACACGCTGTGTAGCACCGGGAACATG
genomic: AATGGTCTGGGAAAAACCAGCAGCAGAATTCGAATGCTGTATTACGCCAAgtgagttgat ... tttgtggtagGTGAAAACATGGGCACCCCTTCTGAACACGCTGTGTAGCACCGGGAACATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAGACTGAGGTTGTGCATGTGATCTGGGATGGGATAATGAATGCTGTTCAATGGTCTGGGAAAAACCAGCAGCAGAATTCGAATGCTGTATTACGCCAAgtgagttgattttctattttattttgaagcaagattatgttgttttgttcaaagctaagctaagctagccgctgttttgtggtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG