Sequence
atgc intronic sequence ATGC exonic sequenceGATAAGGGACTGTCTTGCTCAACTCTATGCAAAGGACATTACTCCTGATGACAAGCAGGAGCTAGATGAGTCTCTGCAAAGAGAGgtaagaactcaacctcactggattgtaacatgttgatttgatataatcctcggataatagatagattggcctttgaaactctccttttttgtttag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G14940.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G14940.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os09g14670.1 (Oryza sativa), 5'ss of exon 3
GATAAGGGACTGTCTTGCTCAACTCTATGCAAAGGACATTACTCCTGATGACAAGCAGGAGCTAGATGAGTCTCTGCAAAGAGAGgtaagaact-caacctcactggattgtaacatgttgatttgatataatcctcggataatagatagattggcctttgaa--actctccttttttgtttag----------------
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GATTCGGAACTGTCTGGTTCAGCTTTATTCAAAGGATATCACTCCAGATGACAAGCAAGAGCTTGATGAGGCTCTCCAGAGAGAGgtacttgttgcaaacattatgttcatttacaaaatgctttg-cattattttcagcatgaggtcagaaagatccataatccattcttatgcttcacctgacatcctattattttag
upper sequence: AT3G14940.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G473001_T01 (Zea mays), 5'ss of exon 3
GATAAGGGACTGTCTTGCTCAACTCTATGCAAAGGACATTACTCCTGATGACAAGCAGGAGCTAGATGAGTCTCTGCAAAGAGAGgtaagaact-caacctcactggattg--taacatgttgatttgatataatcctcgga---taatagatagattggcctttgaaactctccttttttgtttag----
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GATACGCAACTGTTTGGTTCAACTCTACTCAAAAGATATCACTCCGGATGATAAGCAGGAACTTGATGAGGCTCTGCAAAGAGAGgtacttctttcaatctaattttattacctaaaattctttgaagcttgagaccaaagagattaattcttaatttcttacctgaatacctctctctttctttttcaag
upper sequence: AT3G14940.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 3
GATAAGGGACTGTCTTGCTCAACTCTATGCAAAGGACATTACTCCTGATGACAAGCAGGAGCTAGATGAGTCTCTGCAAAGAGAGgtaagaactcaacctcactggattgtaacatgttgatttgatataatcctcggataataga--tagattggcctttgaaactctccttttttgtttag--------
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GATAAGAAACTGTTTAACTCAACTTTATGCAAAGGACATCACTCCAGATGAGAAACAGGAACTTGATGAAGCACTTCAAAGAGAGgtaa----tttgcttcgat--atttcggcatattagtgttatataaaactcgacctacgggggtacgaccgcccccacggcattatattaagaaaaagaccttctc
upper sequence: AT3G14940.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv12s0028g02180.t01 (Vitis vinifera), 5'ss of exon 3
GATAAGGGACTGTCTTGCTCAACTCTATGCAAAGGACATTACTCCTGATGACAAGCAGGAGCTAGATGAGTCTCTGCAAAGAGAGgtaagaactcaacctcactgg-attgtaacatgt---tgatttgatataatcctcggataatagatagattggcctttgaaactctccttttttgtttag
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GATAAGGAATTGCTTGGCCCAGTTATATGCTAAGGACATCACTCCTGATGATAAGCAAGAGCTTGATGAGGCTTTACAAAGAGAGgtatggatttctctgtgttgacatattcccctgcctatgtttcagtctattttttacatgtttcttttgttggatgagaacaactctagaaattactgagMapped 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|86073317|gb|DR369074.1|DR369074EST: ACATTACTCCTGATGACAAGCAGGAGCTAGATGAGTCTCTGCAAAGAGAG ATTCAAGCTGCATTCCGAACAGATGAGATTAGAAGAACACCTCCAACCCCA
genomic: ACATTACTCCTGATGACAAGCAGGAGCTAGATGAGTCTCTGCAAAGAGAGgtaagaactc ... ttttgtttagATTCAAGCTGCATTCCGAACAGATGAGATTAGAAGAACACCTCCAACCCCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATAAGGGACTGTCTTGCTCAACTCTATGCAAAGGACATTACTCCTGATGACAAGCAGGAGCTAGATGAGTCTCTGCAAAGAGAGgtaagaactcaacctcactggattgtaacatgttgatttgatataatcctcggataatagatagattggcctttgaaactctccttttttgtttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA