Sequence
atgc intronic sequence ATGC exonic sequenceTGGATCCCAAGTGTGAGCGATTGGCATGGATTGAATGGAGTCACCCTAATATGCCATGGGATAAAGCAGAGCTGTGGGTTGGGTACATTTCCGAGGGCGGgtaagcatttgcaatttttttcaaatgctttgcatattgcaaatattaatcaaagttacacccttctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G36210.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G36210.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os06g11190.1 (Oryza sativa), 5'ss of exon 5
TGGATCCCAAGTGTGAGCGATTGGCATGGATTGAATGGAGTCACCCTAATATGCCATGGGATAAAGCAGAGCTGTGGGTTGGGTACATTTCCGAGGGCGGgtaagc----atttgcaattttttt-----caaatgctttgcatattgcaaa---tattaatcaaagttacacccttctgcag-----------------
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TTGATCCAATTAAAAGGCGTATGGCATGGATTGAATGGAGTAACCCAAACATGTCATGGGATAAAGCGCAATTATGGGTTGGATATTTCTCTGAGAAAGGgtaatttcttacttgcatgctttctgttctcaactagttttcataaagaaagaggtactactctatctactactggattaccttttttgctttgaaaata
upper sequence: AT5G36210.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os06g11180.1 (Oryza sativa), 5'ss of exon 5
TGGATCCCAAGTGTGAGCGATTGGCATGGATTGAATGGAGTCACCCTAATATGCCATGGGATAAAGCAGAGCTGTGGGTTGGGTACATTTCCGAGGGCGGgtaagcatttgcaatttttttcaaatgc---tttgcatattgcaaatattaatcaaagttacaccct-tctgcag---------------------------
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TTGACCATAATAACAAGCGTATGGCATGGATAGAGTGGAGTCATCCAAATATGCCCTGGGATAAGTCAGAACTTTGGGTTGGCTACTTCTCTGAAAGCGGgtaagcaacatta--tctttagaaatgcatattagaacatgctgcctttttcttccaatcaggtaatataaacaaaacaaatgttacattcgggatgacaga
upper sequence: AT5G36210.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G120302_T01 (Zea mays), 5'ss of exon 5
TGGATCCCAAGTGTGAGCGATTGGCATGGATTGAATGGAGTCACCCTAATATGCCATGGGATAAAGCAGAGCTGTGGGTTGGGTACATTTCCGAGGGCGGgtaa--gcatttgc---------aatttttttcaaatgctttgcatattgca---------aatattaatcaaagttacaccct-tctgcag--------
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TTGATCAAAATAAAAAGCGGATAGCATGGATTGAATGGAGCCATCCAAACATGCCCTGGGATAAATCAGAACTCTGGGTTGGTTACTTCGCCGAAAGCGGgtaattgtaattatcttgtgaataacatattagaacaggtttttttcttgcattcagttttattgtgaataaaagtactatcttgtctgcatcaaatgaa
upper sequence: AT5G36210.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv18s0001g11140.t01 (Vitis vinifera), 5'ss of exon 5
TGGATCCCAAGTGTGAGCGATTGGCATGGATTGAATGGAGTCACCCTAATATGCCATGGGATAAAGCAGAGCTGTGGGTTGGGTACATTTCCGAGGGCGGgtaagcatt-tgcaatttttttcaaatgctttgcatattgcaaatattaat-caaagttacacccttctgcag---------------------------
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TGGACCCAAAAGGGGAACGGTTGGCATGGATTGAATGGAGTCATCCTAATATGCCATGGGATAAAACGGAACTATGGGTTGGTTATATTTCTGAGAATGGgtgagtatgattccctttcttgtgcatttcttctctagtgcatttcttgtttccaagactgatatttccattgacactcaaattttcttggcttgtgtat
upper sequence: AT5G36210.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv18s0001g11150.t01 (Vitis vinifera), 5'ss of exon 5
TGGATCCCAAGTGTGAGCGATTGGCATGGATTGAATGGAGTCACCCTAATATGCCATGGGATAAAGCAGAGCTGTGGGTTGGGTACATTTCCGAGGGCGGgtaagca---------tttgca---------atttttttcaaatg-ctttgcatattgcaaatatta-------atcaaagttacacccttctgcag---
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TGGACTCTAAAGGAGAACGGATTGCATGGATTGAGTGGAGTCACCCTAACATGCCTTGGGATAAAGCAGAACTTTGGGTTGGCTATATTTCAGAGAATGGgtgagtaggattcccttctgtatgctgccatagctctctccagtgtcttttcattttctgaggattatctttgcattagaaatccaattttcttttcttaMapped 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|164051920|gb|ES201976.1|ES201976EST: ATGCCATGGGATAAAGCAGAGCTGTGGGTTGGGTACATTTCCGAGGGCGG AAATATTGATAAGCGCGTATGTGTTGCTGGTTGTGATCCCAAATACGTC
genomic: ATGCCATGGGATAAAGCAGAGCTGTGGGTTGGGTACATTTCCGAGGGCGGgtaagcattt ... ccttctgcagAAATATTGATAAGCGCGTATGTGTTGCTGGTTGTGATCCCAAATACGTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGATCCCAAGTGTGAGCGATTGGCATGGATTGAATGGAGTCACCCTAATATGCCATGGGATAAAGCAGAGCTGTGGGTTGGGTACATTTCCGAGGGCGGgtaagcatttgcaatttttttcaaatgctttgcatattgcaaatattaatcaaagttacacccttctgcag
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