Sequence
atgc intronic sequence ATGC exonic sequencegtcaggatttattcaaataaagttggtgtgtgtcatgtgtctagaaaaggtttagatttagtaatatattgcaagttcttatttaaggattcagtattagtaatcatcagtgtgttgctgtatttgtctggatagATAATCTGGTGGAGAATCTCCTGGGAGATTTTGAGTATGAAGTACAAGGTCCATATTTACTTTACCGTAATGCATCTCAAGAAGTAAATGGCATTTGGTT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G08370.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G08370.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G011173_T02 (Zea mays), 3'ss of exon 3
gtcaggatttattcaaataaagttggtgtgtgtcatgtgtctagaaaaggtttagatttagtaatatat-tgcaagttcttatttaaggattcagtattagtaatcatcagtgtgttgctgtatttgtctggatagATAATCTGGTGGAGAATCTCCTGGGAGATTTTGAGTATGAAGTACAAGGTCCATATTTACTTTACCGTAATGCATCTCAAGAAGTAAATGGCATTTGGTT
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-----------------------------------taaactgatagaactttagtacctttaagtttatatgcacgaagccagatgatgattca-tatggtaaatccttcatgatgaggcgtgttgttctcaacagATAATCTGGTGGAGGATCTCTTAAGTGATTTTGAATACGAACTTCAACCTCCATATTTGTTGTACCGGAATGCTTCACAAGAAGTAAATGGAATTTGGTT
upper sequence: AT1G08370.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G131120_T01 (Zea mays), 3'ss of exon 3
gtcaggatttattcaaataaagttggtgtgtgtcatgtgtctagaaaaggtttagatttagtaatatattgcaagttcttatttaaggattcagtattagtaatcatcagtgtgttgctgtatttgtctggatagATAATCTGGTGGAGAATCTCCTGGGAGATTTTGAGTATGAAGTACAAGGTCCATATTTACTTTACCGTAATGCATCTCAAGAAGTAAATGGCATTTGGTT
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------------------------------cttcttcactcttcacactgtgttgttaaactggtacatatggaggaa--aactgatcatt--gtgccag-attcatgaaaagcttaatagtgtcttcttgacagATAATTTGGTGGAGGATTTATTAAGCGATTTTGAATATGAACTTCAGCCACCATATTTGCTGTACCGAAATGCTTCCCAAGAAGTAAATGGTATTTGGTT
upper sequence: AT1G08370.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA13G39120.1 (Glycine max), 3'ss of exon 3
gtcaggatttattcaaataaagttggtgtgtgtcatgtgtctagaaaaggtttagatttagtaatatattgcaagttcttatttaaggattcagtattagtaatcatcagtgtgttgctgtatttgtctggatagATAATCTGGTGGAGAATCTCCTGGGAGATTTTGAGTATGAAGTACAAGGTCCATATTTACTTTACCGTAATGCATCTCAAGAAGTAAATGGCATTTGGTT
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----------------------taaataaatgctgtattcttactagacttgttggtggagaactacct----aatgcccatgcatgtaacttgcatt--------ttactctttt-ccatgctggcataagcagAAAATTTGGTGGAGAATCTCTTGGGCGATTTTGAGTATGAAGTTCAGATTCCATATTTACTGTATAGAAATGCTGCTCAAGAAGTGAATGGTATCTGGTT
upper sequence: AT1G08370.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv06s0080g00860.t01 (Vitis vinifera), 3'ss of exon 3
gtcaggatttattcaaataaagttggtgtgtgtcatgtgtctagaaaag-gtttagatttagtaatatattgcaagttcttattta-aggattcagtattagtaatcatcagtgtgttgctgtatttgtctggatagATAATCTGGTGGAGAATCTCCTGGGAGATTTTGAGTATGAAGTACAAGGTCCATATTTACTTTACCGTAATGCATCTCAAGAAGTAAATGGCATTTGGTT
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----------------------------------ttgttcttagtactttatttatattgag-agggtgtcatttcatctttttcccaaaacataaaacaaatgttaa--gatgtgccatgttattaaaatgagcagATAATTTGGTGGAGAATCTCTTAGGGGATTTTGAGTATGAAGTTCAGGTTCCATATCTATTATATCGAAATGCAGCCCAAGAAGTCAATGGTATTTGGTTMapped 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|152036002|gb|AU237449.2|AU237449EST: AAGTACACAACCTCGATTTCAGTTTATTGTGATGAATCGTCGTAATACAG ATAATCTGGTGGAGAATCTCCTGGGAGATTTTGAGTATGAAGTACAAGGTC
genomic: AAGTACACAACCTCGATTTCAGTTTATTGTGATGAATCGTCGTAATACAGgtcaggattt ... gtctggatagATAATCTGGTGGAGAATCTCCTGGGAGATTTTGAGTATGAAGTACAAGGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttaaggattcagtattagtaatcatcagtgtgttgctgtatttgtctggatagATAATCTGGTGGAGAATCTCCTGGGAGATTTTGAGTATGAAGTACAAGGTCCATATTTACTTTACCGTAATGCATCTCAAGAAGTAAATGGCATTTGGTT
tttgtct CT-rich tract
tattagtaat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcaggatttattcaaataaagttggtgtgtgtcatgtgtctagaaaaggtttagatttagtaatatattgcaagttcttatttaaggattcagtattagtaatcatcagtgtgttgctgtatttgtctggatagATAATCTGGTGGAGAATCTCCTGGGAGATTTTGAGTATGAAGTACAAGGTCCATATTTACTTTACCGTAATGCATCTCAAGAAGTAAATGGCATTTGGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT