Sequence
atgc intronic sequence ATGC exonic sequenceGCAGCACCATTCAAAGCTTGTTTGCTATATTTCTAAGGAGCTAATGGACACAGAGAACCCACCACAGGTGCTGCCCAATGGCTACGTCTACAGCACCAAGgtttgattctgttcttgtacaacttcagcttctctgttctttttctctttttagaatctttttctattagcttgatcagttacatcagtctatcctatacagttcaaaaaatttaaagttgggttactttttttatttatttgatgggtaaatgaacttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G55070.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G55070.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os05g06760.1 (Oryza sativa), 5'ss of exon 6
GCAGCACCATTCAAAGCTTGTTTGCTATATTTCTAAGGAGCTAATGGACACAGAGAACCCACCACAGGTGCTGCCCAATGGCTACGTCTACAGCACCAAGgtttgattctgttcttgtacaacttcagcttctctgttctttttctctttttagaatctttttctattagcttgatcagttacatcagtctatcctatacagttcaaaaaatttaaagttgggttactttttttatttatttgatgggtaaatgaacttgcag
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GCAGCACCATTCAAAGCTTGTCTGCTACATAACCAAGGAGCTCATGGACACTGAGAACCCACCGCTCGTTTTCCCGAATGGCTATGTTTATAGCACCAAGgtaaaaactacgagctgaaccaggtca----ttacggtattatgccgatctgcgagttcatacttgaaaccgtcgttcgtagtgccacactga--taatccgttgctggctgttcattctatcctacctcag-------------------------------
upper sequence: AT3G55070.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G177026_T02 (Zea mays), 5'ss of exon 6
GCAGCACCATTCAAAGCTTGTTTGCTATATTTCTAAGGAGCTAATGGACACAGAGAACCCACCACAGGTGCTGCCCAATGGCTACGTCTACAGCACCAAGgtttgattctgttcttgtacaacttcagcttctctgttctttttctctttttagaatctttttctattagcttgatcagttacatcagtctatcctatacagttcaaaaaatttaaagttgggttactttttttatttatttgatgggtaaatgaacttgcag
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ACAGCACCACTCGAAGCTTGTTTGTTACATCACCAAGGAGCTCATGGACACTGAGAACCCGCCTCAGGTTCTGCCGAACGGCTATGTCTACAGTGAGAAGgtacacactcaaacctgtgctgttgttgtttgtaaagcatcagttcagttc--aaaccatcttggcttagc---gcttgctgtat--atttgcccccag----------------------------------------------------------------
upper sequence: AT3G55070.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA10G43910.1 (Glycine max), 5'ss of exon 6
GCAGCACCATTCAAAGCTTGTTTGCTATATTTCTAAGGAGCTAATGGACACAGAGAACCCACCACAGGTGCTGCCCAATGGCTACGTCTACAGCACCAAGgtttgattctgttcttgt-acaacttcagcttctctgttctttttctctttttagaatctttttctattagcttgatcagttacatcagtctatcctatacagttcaaaaaatttaaagttgggttactttttttatttatttgatgggtaaatgaacttgcag
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GCAGCATCACTCTAAGCTTGTTTGCTATATAACTAAGGAGTTAATGGACACTGAGAACCCACCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAGgtccc-tgttattctagttattcttttagatgttccatgtataaagcatattttgtttattattttttgctcctttgcag------------------------------------------------------------------------------------
upper sequence: AT3G55070.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA20G38660.1 (Glycine max), 5'ss of exon 6
GCAGCACCATTCAAAGCTTGTTTGCTATATTTCTAAGGAGCTAATGGACACAGAGAACCCACCACAGGTGCTGCCCAATGGCTACGTCTACAGCACCAAGgtttgattctgttcttgtacaacttcagcttctctgttctttttctctttttagaatctttttctattagcttgatcagttacatcagtctatcctatacagttcaaaaaatttaaagttgggttactttttttatttatttgatgggtaaatgaacttgcag
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GCAGCATCACTCTAAGCTTGTTTGCTATATAACTAAGGAGTTAATGGACACTGAGAACCCGCCGCAAGTCTTGCCCAATGGATATGTTTATAGCACTAAGgtccctgttattttagatattcttttagatgttccatgtataaagcatattttgtttattattttttgctcctttgcag------------------------------------------------------------------------------------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|124751637|gb|EH841767.1|EH841767EST: CAGAGAACCCACCACAGGTGCTGCCCAATGGCTACGTCTACAGCACCAAG GCTCTCAAGGAAATGGCGGAAAAGAATGGAGGTAAAA
genomic: CAGAGAACCCACCACAGGTGCTGCCCAATGGCTACGTCTACAGCACCAAGgtttgattct ... gaacttgcagGCTCTCAAGGAAATGGCGGAAAAGAATGGAGGTAAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAGCACCATTCAAAGCTTGTTTGCTATATTTCTAAGGAGCTAATGGACACAGAGAACCCACCACAGGTGCTGCCCAATGGCTACGTCTACAGCACCAAGgtttgattctgttcttgtacaacttcagcttctctgttctttttctctttttagaatctttttctattagcttgatcagttacatcagtctatcctatacagttcaaaaaatttaaagttgggttactttttttatttatttgatgggtaaatgaacttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC