Sequence
atgc intronic sequence ATGC exonic sequenceCGTTATTGTTGCATCGATCATCATTTTCCATACCCCGATTCAACCGGTTAATGCCCTCGGTGCTGCCATTGCGATTTTTGGAACTTTCCTCTACTCACAGgtaaacaaacaaacttattcttgtttacctacctctagtacttggttctttagtgaacaatttctagttctaatataattcattgacgttcttcctatgttctttgcaatcattgagcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G61800.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G61800.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os07g33910.2 (Oryza sativa), 5'ss of exon 2
CGTTATTGTTGCATCGATCATCATTTTCCATACCCCGATTCAACCGGTTAATGCCCTCGGTGCTGCCATTGCGATTTTTGGAACTTTCCTCTACTCACAGgtaaacaaacaaacttattcttgtttacctacctctagtact---tggttctttagtgaaca-atttctagttctaatataattcattgacgttcttcctatgttctttgcaatcattgagcag
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CGTCATTGTCGCCTCCATCATCATCTTCCACACGCCGGTCCAGCCCATCAACGCCCTCGGAGCCGCCATTGCGATTCTCGGAACTTTCATCTACTCTCAGgtagattttccgcacatgttttaccaaatcacatttttcacaaaagagccaattcatgaacataagtctgaatctc---taaccaaaaaaaaaacatctcattttttcag--------------
upper sequence: AT1G61800.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S241_24V6.1 (Physcomitrella patens), 5'ss of exon 4
CGTTATTGTTGCATCGATCATCATTTTCCATACCCCGATTCAACCGGTTAATGCCCTCGGTGCTGCCATTGCGATTTTTGGAACTTTCCTCTACTCACAGgtaaacaaacaaacttattcttgtttacctacctctagtacttggttct--ttagtgaacaatttctagttctaatataattcattgacgttcttcctatgttctttgcaatcattgagcag
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TGTTATTGTATCCTCGATCATCATCTTTCACACAAAAGTCTTGCCCATCAATGCCTTGGGTGCTGCCATTGCAATTTTCGGAACCTTCTTGTACTCTCAGgtaaacactcgagtccagacatcacttgttcagaatgacgctcaaatacgattgcataacgtttttttctttttacaagaagttctgaagccgtaatttc----------------------Mapped 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|116447970|gb|EG490562.1|EG490562EST: ATGCCCTCGGTGCTGCCATTGCGATTTTTGGAACTTTCCTCTACTCACAG GCGAAGCAGTGAGGATGGTTTAGGAGGCAGTTTTTTGGGTTTGTTTTGCAA
genomic: ATGCCCTCGGTGCTGCCATTGCGATTTTTGGAACTTTCCTCTACTCACAGgtaaacaaac ... cattgagcagGCGAAGCAGTGAGGATGGTTTAGGAGGCAGTTTTTTGGGTTTGTTTTGCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGTTATTGTTGCATCGATCATCATTTTCCATACCCCGATTCAACCGGTTAATGCCCTCGGTGCTGCCATTGCGATTTTTGGAACTTTCCTCTACTCACAGgtaaacaaacaaacttattcttgtttacctacctctagtacttggttctttagtgaacaatttctagttctaatataattcattgacgttcttcctatgttctttgcaatcattgagcag
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