Sequence
atgc intronic sequence ATGC exonic sequenceGGAGATACAACAGAGGGCAGTTGAATATTTTGAATTGAGTAAAAAAGGGCCTGCCTTTATGGATGTATTGGCTGAGATGCCAAAATTTCCGGAGCGCCAGgtttgtgaaattattttatgattctatgaaagttactttgacgggaagtttgtgctaaacgactttgatgctggattttttttccgtgtctcttccatag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G22780.1 |
intron # | 17 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G22780.1 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: GRMZM2G137236_T01 (Zea mays), 5'ss of exon 18
GGAGATACAACAGAGGGCAGTTGAATATTTTGAATTGAGTAAAAAAGGGCCTGCCTTTATGGATGTATTGGCTGAGATGCCAAAATTTCCGGAGCGCCAGgtttgtgaaattattttatgattctatgaaagttactttgacgggaagtttgtgctaaacgactttgatgctggattttttttccgtgtctcttccatag
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TGAAATACAACAGAGAGCAGTTGAATATTTTGAACTAAGCAGGAAAGGTCCTGCTTTGGCAGATGTGTTGGCTGAAATGCCAAAATTCCCTGAACGTGAGgtaactccattgataggacactttctcttggtcaacgtcaattt--attccattgagaaggattttccc-cttactgtgggttatttgccaaatctag--
upper sequence: AT5G22780.1 (Arabidopsis thaliana), 5'ss of exon 17
lower sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 17
GGAGATACAACAGAGGGCAGTTGAATATTTTGAATTGAGTAAAAAAGGGCCTGCCTTTATGGATGTATTGGCTGAGATGCCAAAATTTCCGGAGCGCCAGgtttgtgaaattattttatgattctatgaaa---gttactttgacgggaagtttg-tgctaaacgactttga-----tgctggattttttttccgtgtc---tcttccatag------------------------------------------------
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TGAGATACAGCAACGAGCTGTTGAATATTTTGCATTGAGTAGGAAAGGTGCGGCTTTAATGGATATATTGGCTGAAATGCCTAAATTCCCTGAGCGTCAGgtgtgtttatgggcttcatatttgctcagaataggttattctatcattattttgaattccaaatctattagagattgtgcttggttgctctctggaggaaaattttatgtagtatgtaaattgttgacactaactgttatatcctcttttctaaatgtagMapped 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|301501394|gb|HO206934.1|HO206934EST: CTGCCTTTATGGATGTATTGGCTGAGATGCCAAAATTTCCGGAGCGCCAG TCTTCATTGATTAAAAAGGCAGAAAACGTTGAAGATACCGCAGACCAGAGT
genomic: CTGCCTTTATGGATGTATTGGCTGAGATGCCAAAATTTCCGGAGCGCCAGgtttgtgaaa ... tcttccatagTCTTCATTGATTAAAAAGGCAGAAAACGTTGAAGATACCGCAGACCAGAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAGATACAACAGAGGGCAGTTGAATATTTTGAATTGAGTAAAAAAGGGCCTGCCTTTATGGATGTATTGGCTGAGATGCCAAAATTTCCGGAGCGCCAGgtttgtgaaattattttatgattctatgaaagttactttgacgggaagtttgtgctaaacgactttgatgctggattttttttccgtgtctcttccatag
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