Sequence
atgc intronic sequence ATGC exonic sequenceGTCTGACATATTGTATTATGAAGTTTTGGATATTCCTCTTCCAGAATTGCAAGGTCTTAAGACTCTAAAAGTAGCTTTCCATAGTGCCACAAAGGATGAAgtatggattttaaacttaaatttgcgattcgtagctctcttatcacatgttattgtctttaaggcttaataaatcttaaatatacag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G11910.1 |
intron # | 24 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G11910.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 5'ss of exon 20
GTCTGACATATTGTATTATGAAGTTTTGGATATTCCTCTTCCAGAATTGCAAGGTCTTAAGACTCTAAAAGTAGCTTTCCATAGTGCCACAAAGGATGAAgt-atggattttaaacttaaatttgcgattcgtagctctcttatcacatgttattgtctttaaggcttaataaatcttaaatatacag
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ATCAGACATATTGTATTATGAGGTGTTGGATATTCCACTGCCAGAATTGCAGGGCCTGAAAACCCTGAAAGTTGCATTCCACCATGCTACAAAGGATGAGgttattagctgcaaacaatacatctttatttatc-ttcagctaccaagtgcatatattcatgaaacatcctttttttctag-------
upper sequence: AT3G11910.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: GRMZM2G418232_T01 (Zea mays), 5'ss of exon 3
GTCTGACATATTGTATTATGAAGTTTTGGATATTCCTCTTCCAGAATTGCAAGGTCTTAAGACTCTAAAAGTAGCTTTCCATAGTGCCACAAAGGATGAAgtatggattttaaacttaaatttgcgattcgtagctctcttatcacatgttattgtctttaaggcttaataaatcttaaatatacag
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GTCTGACATCTTGTATTATGAAGTGTTGGATATACCACTGCCAGAATTGCAGTTCCTAAAAACCCTGAAAGTTGCATTTCACCATCCTACGAAGGATGAGgtttgttttgctaccagacacatatggtgtactgc-ctatagtattgtgtgtatatcttcatatgatatccttcctccag-------
upper sequence: AT3G11910.1 (Arabidopsis thaliana), 5'ss of exon 24
lower sequence: Vv08s0032g00600.t01 (Vitis vinifera), 5'ss of exon 24
GTCTGACATATTGTATTATGAAGTTTTGGATATTCCTCTTCCAGAATTGCAAGGTCTTAAGACTCTAAAAGTAGCTTTCCATAGTGCCACAAAGGATGAAgtatggattttaaacttaaatttgcgat--tcgtagctctct-tatcacat-gttattgtctttaaggct--taataaatcttaaatatacag-------
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TTCTGATATTTTATATTATGAAGTTCTAGACATCCCTCTTCCAGAATTGCAAGGTCTGAAAAATCTGAAAGTTGCTTTTCATCATGCTACAAAGGATGATgtgagttaatgaactatctattttccaccatcgtacctttctatatatcattgatgttttttttaagcctattgtgcaatctcatttggactattttcagMapped 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|163994013|gb|ES205351.1|ES205351EST: TCCATAGTGCCACAAAGGATGAA GTGATAATCCACAATATCAGACTACCTAAGCAGAGTACTGTTGGAGATGTT
genomic: TCCATAGTGCCACAAAGGATGAAgtatggattt ... aaatatacagGTGATAATCCACAATATCAGACTACCTAAGCAGAGTACTGTTGGAGATGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCTGACATATTGTATTATGAAGTTTTGGATATTCCTCTTCCAGAATTGCAAGGTCTTAAGACTCTAAAAGTAGCTTTCCATAGTGCCACAAAGGATGAAgtatggattttaaacttaaatttgcgattcgtagctctcttatcacatgttattgtctttaaggcttaataaatcttaaatatacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG