Sequence
atgc intronic sequence ATGC exonic sequenceTGATGAGGACAAAGAGGCTTGTGAGGAGAGGTATAATAAGAGCAAGCTTGTTCACTCTATCATGCGTCATGTTGCTGAGACTGTTGGTGTCGATTTGGAGgtatattcattcatacgattctctgactcttctcgaatttgtttgaatgtaggtcaatgttcttgaactgaaacaaggtccaatttctgaggaaaaaccttcttttttgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G05470.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G05470.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv06s0004g07100.t01 (Vitis vinifera), 5'ss of exon 1
TGATGAGGACAAAGAGGCTTGTGAGGAGAGGTATAATAAGAGCAAGCTTGTTCACTCTATCATGCGTCATGTTGCTGAGACTGTTGGTGTCGATTTGGAGgtatattcattcatacgattctc----tgactcttctcgaatttgtttgaatgtaggtcaat--gttcttgaactgaaacaaggtccaatttctgaggaaaaaccttcttttttgtag
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GGAAGAGGATATTCAAGTCTGTGAGGAGAGATACAATAAGAGCAAGCTTGTTCATTCCATTATGCGCCATGTTGCTGAGACTATGAATCTTGATCTGGAGgta-atgccttttaacttttcttgttttgattgttgattgccttctcttttttttggttattttgtttttacattg---catattagaatgtgttgaatttggc--------------
upper sequence: AT5G05470.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv13s0067g01710.t01 (Vitis vinifera), 5'ss of exon 1
TGATGAGGACAAAGAGGCTTGTGAGGAGAGGTATAATAAGAGCAAGCTTGTTCACTCTATCATGCGTCATGTTGCTGAGACTGTTGGTGTCGATTTGGAGgtatattcattc-atacgattctctgactcttctcgaatttg--tttgaatgtaggtcaatgttcttgaactgaaacaaggtccaatttctgaggaaaaaccttcttttttgtag
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AGAGGAGGATATTCAGGCGTGCGAGGAGAGGTACAATAAGAGCAAGCTTGTTCACTCGATTATGCGGCATGTTGCCGAGACGATGCAGCTTGATTTGGAGgtacattgggtcgattctagtggttggttgctgagaaaattgattttgttttcaaatca---ttaacaaact-aaactaagccaaatcgc--aggttatcctttgt---------
upper sequence: AT5G05470.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: EFJ25833 (Selaginella moellendorffii), 5'ss of exon 2
TGATGAGGACAAAGAGGCTTGTGAGGAGAGGTATAATAAGAGCAAGCTTGTTCACTCTATCATGCGTCATGTTGCTGAGACTGTTGGTGTCGATTTGGAGgtatattcattcatacgattctctgactcttctcgaatttgtttgaatgtaggtcaatgttcttgaactgaaacaaggtccaatttctgaggaaaaaccttcttttttgtag
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GGAGGAGGACATTGCGGTGTGCGAGGAGCGATTCAACAAGAGCAAGCTCGTTCATTCAATCATGCGTCACGTTGCTGACACTGAAAGTGTCGATCTTGAGgtatgaaaaaaggtttcttttcacgacaagttctcacttctttt---tttttcctcatgttctc-acttcttcttttttcctcatgttgtgcag------------------
upper sequence: AT5G05470.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: EFJ05288 (Selaginella moellendorffii), 5'ss of exon 2
TGATGAGGACAAAGAGGCTTGTGAGGAGAGGTATAATAAGAGCAAGCTTGTTCACTCTATCATGCGTCATGTTGCTGAGACTGTTGGTGTCGATTTGGAGgtatattcattcatacgattctctgactcttctcgaatttgtttgaatgtaggtcaatgttcttgaactgaaacaaggtccaatttctgaggaaaaaccttcttttttgtag
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GGAGGAGGACATTGCGGTGTGCGAGGAGCGATTCAACAAGAGCAAGCTCGTTCATTCAATCATGCGTCACGTTGCTGACACTGAAAGTGTCGATCTTGAGgtatgaaaaaaggtttcttttcacgacaagttctcacttctttt---tttttcctcatgttgtgcag---------------------------------------------Mapped 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|19877524|gb|AU238355.1|AU238355EST: TTCACTCTATCATGCGTCATGTTGCTGAGACTGTTGGTGTCGATTTGGAG GAGCTATACGTAAACATCGGTTGGCCATTGTATAAGAAGCATGGACATGCT
genomic: TTCACTCTATCATGCGTCATGTTGCTGAGACTGTTGGTGTCGATTTGGAGgtatattcat ... ttttttgtagGAGCTATACGTAAACATCGGTTGGCCATTGTATAAGAAGCATGGACATGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATGAGGACAAAGAGGCTTGTGAGGAGAGGTATAATAAGAGCAAGCTTGTTCACTCTATCATGCGTCATGTTGCTGAGACTGTTGGTGTCGATTTGGAGgtatattcattcatacgattctctgactcttctcgaatttgtttgaatgtaggtcaatgttcttgaactgaaacaaggtccaatttctgaggaaaaaccttcttttttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG