Sequence
atgc intronic sequence ATGC exonic sequenceATACATGATGAGGCTAAAAAGTTCTCTTACCAAACTGGTGTGAAGGTGGTTGTTGCATATGGAGGAACACCTATTAACCAGCAGgtatgtaatgagcaaatagtttgtttttttctacttttttgtttgaacttttgatttctgagttttgtttcatgcgtctgtcactgctgtctgttttgtg...
Basic information
species | Arabidopsis thaliana |
transcript | AT2G42520.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G42520.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os11g38670.1 (Oryza sativa), 5'ss of exon 2
ATACATGATGAGGCTAAAAAGTTCTCTTACCAAACTGGTGTGAAGGTGGTTGTTGCATATGGAGGAACACCTATTAACCAGCAGgtatgtaatgagcaaatagtttgtttttttctacttttttgtttgaacttttgatttctgagttttgtttcatgcgtctgtcactgctgtctgttttgtg
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ATTCATGAGGAGGCGAGAAAATTTTCCTATCAGACCGGTGTCAGGGTGGTTGTTGCATATGGAGGAGCACCTATTAATCAGCAGgtctggttccggatctttccacgaaatttcaaatccaattatgtgtcaattcaagtttagaaaactgcttgctcggtattttaggatggttagaacttga
upper sequence: AT2G42520.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G26630.2 (Glycine max), 5'ss of exon 2
ATACATGATGAGGCTAAAAAGTTCTCTTACCAAACTGGTGTGAAGGTGGTTGTTGCATATGGAGGAACACCTATTAACCAGCAGgtatgtaatgagcaaatagtttgtttttttctacttttttgtttgaacttttgatt-tctgagttttgtttca--tgcgtctgtcactgctgtctgttttgtg
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ATACATGATGAGGCCAAAAAGTTTTCTTATCAAACTGGTGTCAAAGTGGTGGTTGCTTATGGAGGAGCACCAATCACCCAACAGgt-tatttttacccactgatgttcaaggcact-ctgacttattttaacttttgcctatatatactttattttggttgttttgtttaccatcacctccttgac-
upper sequence: AT2G42520.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA09G15940.1 (Glycine max), 5'ss of exon 3
ATACATGATGAGGCTAAAAAGTTCTCTTACCAAACTGGTGTGAAGGTGGTTGTTGCATATGGAGGAACACCTATTAACCAGCAGgtatgtaatgagcaaatagtttgtttttttctacttttttgtttgaacttttgatt-tctgagttttgtttcatgcgtctgtcactgctgtctgttttgtg-
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ATACATGATGAGGCCAAAAAGTTTTCTTATCAAACTGGTGTCAAAGTTGTGGTTGCTTATGGAGGAGCACCAATCAACCAACAGgt-tatttttacccactgatgttcatggcactctgacttattttaaccttttgccaatatatactttattttggttgttt-tgtttaccatcacctccttga
upper sequence: AT2G42520.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv08s0007g07070.t01 (Vitis vinifera), 5'ss of exon 3
ATACATGATGAGGCTAAAAAGTTCTCTTACCAAACTGGTGTGAAGGTGGTTGTTGCATATGGAGGAACACCTATTAACCAGCAGgtatgtaatgagcaa-atagtttgtttttttctacttttttgtttgaacttttgatttctgagttttgtttcatgcgtctgtcactgctgtctgttttgtg
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ATACATGATGAAGCTAGAAAGTTTTCCTATCAAACTGGTGTTAAGGTGGTAGTTGCTTACGGAGGAGCACCAATCAACCAACAGgtttttattatctagcattggttgtgcttgtcaattttcttctttcacctaaatatttggtttgtcattttgttaaatcatacattgcttgacatagaaa-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|47829486|gb|CK119170.1|CK119170EST: TGGTGTGAAGGGTGGTTGTTGCATATGGAGGAACACCTATTAACCAGCAG CTCCGGGAACTTGAGAGGGGAGTCGATATTCTTGTGGCAACGCCTGGTCGA
genomic: TGGTGTGAAGG-TGGTTGTTGCATATGGAGGAACACCTATTAACCAGCAGgtatgtaatg ... gtttgtgcagCTCCGGGAACTTGAGAGGGGAGTCGATATTCTTGTGGCAACGCCTGGTCGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATACATGATGAGGCTAAAAAGTTCTCTTACCAAACTGGTGTGAAGGTGGTTGTTGCATATGGAGGAACACCTATTAACCAGCAGgtatgtaatgagcaaatagtttgtttttttctacttttttgtttgaacttttgatttctgagttttgtttcatgcgtctgtcactgctgtctgttttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agcaaata