Sequence
atgc intronic sequence ATGC exonic sequenceCTTCCTGACTTCTGCTCAAAAGACAACTCCTTAATCGTCAAGGAAATATTCGGCGTTACAGAgtatgttaactttattcttatgcttttacaatgttccttttacttgaccatctctacaaaacatttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G08540.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G08540.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA20G00210.1 (Glycine max), 5'ss of exon 5
CTTCCTGACTTCTGCTCAAAAGACAACTCCTTAATCGTCAAGGAAATATTCGGCGTTACAGAgtatgttaactttattcttatgctttt-aca---atgttccttttacttgaccatctctacaaa-acatttcag------------------------------------------------------
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CTGCCAGAGTTTTGTTCAAGAGATACCTCCTTAGTTGTCAAGGAAATCTTCGGAGTTACAGAgtatgtt--ctatatgcttgctttcttgacaaacatgatatctctatccgcattcttatgtaaatatagctcgcattagagatgtcaagatggctaagaaagaatgttttcttggttttctttctcag
upper sequence: AT5G08540.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA0048S00270.1 (Glycine max), 5'ss of exon 5
CTTCCTGACTTCTGCTCAAAAGACAACTCCTTAATCGTCAAGGAAATATTCGGCGTTACAGAgtatgttaactttattcttatgcttttacaatgttccttttacttgaccatctctacaaaacattt-cag------------------------------
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CTGCCAGAGTTTTGTTCAAGAGATAGCTCCTTAGTTGTCAAGGAAATCTTCGGTGTTACAGAgtatgttctatatgcttgctttcttgtcaaacttgatatctctatcagcattcttattatgtaaatatagcttgcattagagatgtcaagatggctacaa
upper sequence: AT5G08540.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv10s0071g01010.t01 (Vitis vinifera), 5'ss of exon 5
CTTCCTGACTTCTGCTCAAAAGACAACTCCTTAATCGTCAAGGAAATATTCGGCGTTACAGAgtatgttaactttattcttatgcttttacaatgttccttttacttgaccatctctacaaaacatttcag--------------
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CTTCCAGAGTTCTGTTCAAGGGACAGCTCCTTAGTCATCAAGGAAATATTTGGCGTTACAGAgtatat-acctctgcttaaactctaggccagtgttt-tcccatgagggtagtttttcattttctgtagttctccttttctcagMapped 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|86085871|gb|DR381630.1|DR381630EST: TGCTCAAAAGACAACTCCTTAATCGTCAAGGAAATATTCGGAGTTMCAGA TGAAGACGCAGAGAAGCTGCGGATACACGCTCTTGCTGAAGCTGGAGACAT
genomic: TGCTCAAAAGACAACTCCTTAATCGTCAAGGAAATATTCGGCGTTACAGAgtatgttaac ... aacatttcagTGAAGACGCAGAGAAGCTGCGGATACACGCTCTTGCTGAAGCTGGAGACAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTCCTGACTTCTGCTCAAAAGACAACTCCTTAATCGTCAAGGAAATATTCGGCGTTACAGAgtatgttaactttattcttatgcttttacaatgttccttttacttgaccatctctacaaaacatttcag
- - - - - - - - - - - - - - - - - - - AAGGAA