Sequence
atgc intronic sequence ATGC exonic sequencegtgagaatgaagtatttttgtacaaattctagttccatatgatactttatttgggaataacttaattgtcgtaagatattatttctctgtagTGGTTGAAGACATATTTAGACGAAGACAACCACTTCCTTCAATGGATGCAATATACTTCATCCAGCCAACTAAAGAGAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G12360.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G052880_T01 (Zea mays), 3'ss of exon 3
-gtgagaatgaagtatttttgtacaaa-----ttctagttccatatgatacttt-atttgggaataacttaattgtcgtaagat-attatttctctgtagTGGTTGAAGACATATTTAGACGAAGACAACCACTTCCTTCAATGGATGCAATATACTTCATCCAGCCAACTAAAGAGAA
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agtgatattcccatttctttggattgaagtgcctttgtgagaatatgggatttccactagatgctaacatagagtccgaaatatgaaaattgttttgcagTGGTCGAAGATTTATATAAACGGAGGCAACCATTGCCTTCACTGGATGCCATATATTTCATCCAACCAACTAAAGAGAA
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA05G03970.1 (Glycine max), 3'ss of exon 4
gtgagaatgaa-gtatttttgtacaaattctagttccatatgatactttatttgg---gaataact-taattgtcgtaagatat----------tatttctctgtagTGGTTGAAGACATATTTAGACGAAGACAACCACTTCCTTCAATGGATGCAATATACTTCATCCAGCCAACTAAAGAGAA
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------atgattacactttcggaagaaaatta-ttccatagacacccatattttgctcaactagttctaattcttgtatggtatgtgatttgtttttctttttgtagTGGTTGAAGACATATTCAAGCGAAGGCAACCATTGCCCACCATGGATGCTATATACTTCATCCAGCCAACCAGAGAGAA
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA17G14450.1 (Glycine max), 3'ss of exon 3
------------gtgagaatgaagtatttttgtacaaattctagttccatatgatactttatttgggaataacttaattgtcgtaagatattatt-tctctgtagTGGTTGAAGACATATTTAGACGAAGACAACCACTTCCTTCAATGGATGCAATATACTTCATCCAGCCAACTAAAGAGAA
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tatgattacactttcggaagaaaattattccctagacacccatattttgcacaactagttct-----aattcttgtatgtatgtgatttgtttttctttttgtagTAGTTGAAGACATATACAAGCGAAGGCAGCCATTGCCCACCTTGGATGCTATATACTTCATCCAGCCAACCAGAGAGAA
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 3
----gtgagaatgaagtatttttgtacaaattcta-gttccatatgatactttatttgggaataactt-aattgtcgtaagatattatttctctgt--agTGGTTGAAGACATATTTAGACGAAGACAACCACTTCCTTCAATGGATGCAATATACTTCATCCAGCCAACTAAAGAGAA
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gtgtgtgtgtgtgtgtgttttttttttaatatatatataccttttttcgctttttcttttctcatctttgaatgtatcaaatttctatttctctgtgcagTGGTGGAAGATATATACAAGCGAAGGCAGCCATTGCCCTCAATGGACGCAATATACTTCATACAGCCAACCAAAGAGAAMapped 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|164194439|gb|EL971670.1|EL971670EST: AATGTCGTACGCCTGCAAAATGGCTGATATCACACAAGAAGGAGTTTCAT TGGTTGAAGACATATTTAGACGAAGACAACCACTTCCTTCAATG
genomic: AATGTCGTACGCCTGCAAAATGGCTGATATCACACAAGAAGGAGTTTCATgtgagaatga ... ttctctgtagTGGTTGAAGACATATTTAGACGAAGACAACCACTTCCTTCAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgatactttatttgggaataacttaattgtcgtaagatattatttctctgtagTGGTTGAAGACATATTTAGACGAAGACAACCACTTCCTTCAATGGATGCAATATACTTCATCCAGCCAACTAAAGAGAA
ttatttctct CT-rich tract
taagatattatttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaatgaagtatttttgtacaaattctagttccatatgatactttatttgggaataacttaattgtcgtaagatattatttctctgtagTGGTTGAAGACATATTTAGACGAAGACAACCACTTCCTTCAATGGATGCAATATACTTCATCCAGCCAACTAAAGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA