Sequence
atgc intronic sequence ATGC exonic sequenceTCACTTCTACTTGCAAGAGCACCCTGATATAATCAACGATCTTCTCAATGTGCTTGCTCTGCGGTTAGATCACACGCGTGTCGTTGATATTATGCGCAAGgttagaggctgaccattgatttaatattttctgttaaaaacttatcaccagtggcttaacaatctatatctgatgattatttcttgtttctgatctcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G11130.1 |
intron # | 25 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 5'ss of exon 25
TCACTTCTACTTGCAAGAGCACCCTGATATAATCAACGATCTTCTCAATGTGCTTGCTCTGCGGTTAGATCACACGCGTGTCGTTGATATTATGCGCAAGgttagaggctgaccattgatttaatattttctgttaaaaacttatcaccagtggcttaacaatctatatctgatgattatttcttgtttctgatctcag
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GCACTTCTATCTGCAAGAGCATCCTGATCTCATCAATGACCTTCTCAATGTACTTGCGCTTCGTTTGGATCATACAAGAGTCGTGGACATAATGCGCAAGgtttgtttcttatggcagggcc--ttctattggtctatcagttttgctctgt--ttcaaaattttgaactgtttaattattatttgtacag--------
upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: GRMZM5G804382_T01 (Zea mays), 5'ss of exon 2
TCACTTCTACTTGCAAGAGCACCCTGATATAATCAACGATCTTCTCAATGTGCTTGCTCTGCGGTTAGATCACACGCGTGTCGTTGATATTATGCGCAAGgttagaggctgaccattgatttaatattttctgttaaaaacttatcaccagtggcttaacaatctatatctgatgattatttcttgtttctgatctcag-----
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TCACTTCTATTTGCAAGAGCATCCTGATCTCATCAATGATATGCTGAATGTGCTTGCACTTCGTTTAGATCATACCAGAGTTGTAGACATAATGCGCAAGgttagcatctgaatggaaatttatt--tccttagcgcactttgaatagaagccctgtttcaaattccttccaa-aatcttactgtcttgttgctctttggacag
upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: GRMZM5G822591_T01 (Zea mays), 5'ss of exon 2
TCACTTCTACTTGCAAGAGCACCCTGATATAATCAACGATCTTCTCAATGTGCTTGCTCTGCGGTTAGATCACACGCGTGTCGTTGATATTATGCGCAAGgttagaggctgaccattgatttaatattttc-tgttaaaaacttatcaccagtggcttaacaatctatatctgatgat-tatttcttgtttctgatctcag-----
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TCACTTCTATTTGCAGGAGCATCCTGATCTCATCAATGATATGCTGAATGTGCTTGCACTTCGTTTAGATCATACCAGAGTTGTAGACATAATGCGCAAGgttagcatctgaatgaaaatttatttccttagcgcactttggatagaagccctgttttcaaattccttcccccaaaatctgacttgtcttgttgctctttggacag
upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 25
TCACTTCTACTTGCAAGAGCACCCTGATATAATCAACGATCTTCTCAATGTGCTTGCTCTGCGGTTAGATCACACGCGTGTCGTTGATATTATGCGCAAGgttagag-----gctgaccattg-atttaatattttctgttaaaaacttatcaccagtggcttaacaatctatatctgatgattatttcttgtttctgatctcag------------------
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GCACTTTTACTTGCAAGAGCATCCTGATCTCATTAATGATCTTCTAAATGTGCTTGCACTTCGAGTAGACCATACTCGTGTGGTTGACATAATGCGGAAGgtttttgtttgtgctggcttttttgtttcctttcttcttcttctgaagtat-gttacttgtttccttgactcttctagacgtttatgtactcttttggttatgcgttttttgttggattccagMapped 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|116461287|gb|EG503879.1|EG503879EST: TGCTTGCTCTGCGGTTAGATCACACGCGTGTCGTTGATATTATGCGCAAG GCTGGTCACTTGCGCCTTATTAAGCCATATATGGTTGCAGTTCAGAGCAAT
genomic: TGCTTGCTCTGCGGTTAGATCACACGCGTGTCGTTGATATTATGCGCAAGgttagaggct ... ctgatctcagGCTGGTCACTTGCGCCTTATTAAGCCATATATGGTTGCAGTTCAGAGCAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCACTTCTACTTGCAAGAGCACCCTGATATAATCAACGATCTTCTCAATGTGCTTGCTCTGCGGTTAGATCACACGCGTGTCGTTGATATTATGCGCAAGgttagaggctgaccattgatttaatattttctgttaaaaacttatcaccagtggcttaacaatctatatctgatgattatttcttgtttctgatctcag
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