Sequence
atgc intronic sequence ATGC exonic sequenceTGAAAGATCAGTGGCTTATAACGAGCACCGACCGAGAACTCCTCCACCAGACTTGCCATCTATGCTTCTTGACGGGAGAATTGTTTACATTGGAATGCCTgtaagttatgtggattcttatggattttttggttgggactgcatagactgatgatgacatattttgctttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G09130.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G09130.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA03G39570.1 (Glycine max), 5'ss of exon 2
TGAAAGATCAGTGGCTTATAACGAGCACCGACCGAGAACTCCTCCACCAGACTTGCCATCTATGCTTCTTGACGGGAGAATTGTTTACATTGGAATGCCTgtaag-------ttatgtggattcttatggatt-ttttggttgggactgcatagactgatgatgaca-----tattttgctttcag--------------------------------------
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TGAAAGATCTGTTTCATACAACGAACACCGACCCAGAAGGCCACCGCCTGACCTGCCTTCGCTGCTTCTCCATGGTAGAATTGTTTACATTGGCATGCCTgtaagtgttcaattgtgtattgctttatgtgttattgcatttcgtgccgattctgctgtttgtgagagttaatactttgctgttgtaatttgtacaacctgctatgactgtttttgaatctcag
upper sequence: AT1G09130.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA19G42180.2 (Glycine max), 5'ss of exon 2
TGAAAGATCAGTGGCTTATAACGAGCACCGACCGAGAACTCCTCCACCAGACTTGCCATCTATGCTTCTTGACGGGAGAATTGTTTACATTGGAATGCCTgtaag--ttatgtggattcttatggatt-ttttggttgggactgcat---agactgatgatgacatattttgctttcag----------------------------------------------------
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TGAAAGGTCTGTTTCATACAACGAACACCGGCCCAGAAGGCCGCCACCTGACCTGCCTTCGCTGCTTCTCCATGGTAGAATTGTTTACATTGGCATGCCTgtaagtgttcaattgtcaattgtgtattgttttatgtgttattgcatctggttccgattctgctgtttattgcagttaatactttgttgttgcaatttgtacaacctgctatgactgtttttgaatctcag
upper sequence: AT1G09130.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv14s0060g02160.t01 (Vitis vinifera), 5'ss of exon 2
TGAAAGATCAGTGGCTTATAACGAGCACCGACCGAGAACTCCTCCACCAGACTTGCCATCTATGCTTCTTGACGGGAGAATTGTTTACATTGGAATGCCTgtaagttatgtggattcttatggattttttggttgggactgcatagactgatgatgacatattttgctttcag--------------------------------
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GGAAAGATCTGTCTCGTACAATGAGCACAGGCCAAGGAGGCCTCCACCGGACTTGCCTTCCCTGCTTCTCCATGGGAGAATAGTTTACATTGGCATGCCAgtaagtagt-taaatgc--aatatttctctctatgaaacttatcaaa--aaaaaaaatatatttctctctaggaatataattctttttggtggaaatcaaaacac
upper sequence: AT1G09130.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S74_255V6.1 (Physcomitrella patens), 5'ss of exon 3
TGAAAGATCAGTGGCTTATAACGAGCACCGACCGAGAACTCCTCCACCAGACTTGCCATCTATGCTTCTTGACGGGAGAATTGTTTACATTGGAATGCCTgtaagtt----atgt---ggattcttatggattttttggttgggactgcatag--actgatgatgacatattttgctttcag------------------
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GGAGAGGACATCGGGCTACAACGAGCACAGGCCCCGTCGACCACCCCCGGATCTTCCCTCGTTGCTCCTGCATAGCAGAATTGTGTACATTGGAATGCCTgtaagtttcttacgtcttgaattagggcgagtttcgaattcggcaataccttggaatagacagtattgacttcggcatttagggtttatcactttaccaa
upper sequence: AT1G09130.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S37_54V6.1 (Physcomitrella patens), 5'ss of exon 3
TGAAAGATCAGTGGCTTATAACGAGCACCGACCGAGAACTCCTCCACCAGACTTGCCATCTATGCTTCTTGACGGGAGAATTGTTTACATTGGAATGCCTgtaagttatgtggattcttatggattttttgg---ttgggactgcatagactgatgatgacatattt--tgctttcag------------------------
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GGAGAGGTCATCTGGCTACAACGAGCACAGGCCCCGTCGGCCACCTCCTGACCTTCCTTCATTGCTCTTGAATAGCAGAATTGTGTACATTGGAATGCCTgtaagtttctc--attgtctcgaattatgctgaatttgggaattggcaacattttggattcgtactcgctacttcgagattatggattttgtagtgcagcaaMapped 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|86066846|gb|DR362603.1|DR362603EST: ACTTGCCATCTATGCTTCTTGACGGGAGAATTGTTTACATTGGAATGCCT CTTGTGCCGGCAGTGACTGAGCTAGTTGTCGCTGAGCTAATGTATCTTCAG
genomic: ACTTGCCATCTATGCTTCTTGACGGGAGAATTGTTTACATTGGAATGCCTgtaagttatg ... ttgctttcagCTTGTGCCGGCAGTGACTGAGCTAGTTGTCGCTGAGCTAATGTATCTTCAG
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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAAAGATCAGTGGCTTATAACGAGCACCGACCGAGAACTCCTCCACCAGACTTGCCATCTATGCTTCTTGACGGGAGAATTGTTTACATTGGAATGCCTgtaagttatgtggattcttatggattttttggttgggactgcatagactgatgatgacatattttgctttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA