Sequence
atgc intronic sequence ATGC exonic sequenceGGGTTTGATAATCTCAGGAGTCAAAGTGTTGCTCCTCCACAGTGGACCATGCGCAACACTGATGACAGgtactgcagttagcaacatcaatattaactattacaagatgtgaagtatacatgataagcgatgatatttttgttgacgtagttttcttcatttaatacatacctttctctgtcatgattgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G47550.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G47550.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os03g42750.1 (Oryza sativa), 5'ss of exon 4
GGGTTTGATAATCTCAGGAGTCAAAGTGTTGCTCCTCCACAGTGGACCATGCGCAACACTGATGACAGgt-actgcagttagcaacatcaatattaactattacaagatgtgaagtatacatgataagcgatgatatttttgttgacgta--gttttcttcatttaatacatacctttctctgtcatgattgtag
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GGGTTTGATAACCTTAGAAGTCAGAGTGTTGCCCCTCCACAATGGACAATGCGCAACATTGATGACAGgttattgc--ctagaaacatttctgt--agtactg--aactgctacttttatttatgtaatttacatgccttaatgaatttacaaactttgcaaatgtatacatac---------------------
upper sequence: AT1G47550.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G099056_T01 (Zea mays), 5'ss of exon 4
GGGTTTGATAATCTCAGGAGTCAAAGTGTTGCTCCTCCACAGTGGACCATGCGCAACACTGATGACAGgtactgcagttagcaacatcaatattaactattacaagatg-tgaagtatacatgataagcga--tgatatttttgttgacgtagttttcttcatttaatacatacctttctctgtcatgattgtag
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GGATTTGATAACCTTAGGAGTCAGAGTGTTGCCCCACCACAATGGACGATGCGTAACATTGATGACAGgttgt-tgcccagaaagtttgctgtgtggtattagactctgctagagtgctaattttatccaacttcttgtctcttgtgctttaaatctcattctttgctatatattttgcag--------------
upper sequence: AT1G47550.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA04G03710.1 (Glycine max), 5'ss of exon 4
GGGTTTGATAATCTCAGGAGTCAAAGTGTTGCTCCTCCACAGTGGACCATGCGCAACACTGATGACAGgtactgcagttagcaacatcaatattaactattacaagatgtgaagtatacatgataagcgatgatatttttgttgacgtagtttt--cttcatttaatacatacctttctctgtcatgattgtag
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GGGTTTGATAACCTTAGAAGCCAGAGTGTGGCTCCTCCACAGTGGACAATGCGCAATGTCGATGACAGgttatac---------cattaaaatgtataatctaagcatgtagagttta-atcctttatggttttatgttatgtaacgaaagtggagtttggctcactgcatcgtctattacttctc--ttgtag
upper sequence: AT1G47550.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 4
GGGTTTGATAATCTCAGGAGTCAAAGTGTTGCTCCTCCACAGTGGACCATGCGCAACACTGATGACAGgtactgcagttagcaacatcaatattaactattacaagatgtgaagtatacatgataagcgatgatatttttgttgacgtagttttcttcatttaatacatacctttctctgtcatg-attgtag
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GGATTTGATAATCTCAGAAGCCAGAGTGTCGCTCCACCTCAGTGGACAATGCGCAATATTGATGACAGgtac---------caacatagctgttgatttgtaaaacatatcatgtatc--------acttttctatttttttt--------ttgtattgtatattataagtttttttatatagtggaaaataaMapped 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|124961049|gb|EL035653.1|EL035653EST: CCTCCACAGTGGACCATGCGCAACACTGATGACAG GAACCGACTTTTAGTTTGCATATTGAACATATGCAAAGACGTATTAGGCCG
genomic: CCTCCACAGTGGACCATGCGCAACACTGATGACAGgtactgcagt ... atgattgtagGAACCGACTTTTAGTTTGCATATTGAACATATGCAAAGACGTATTAGGCCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGTTTGATAATCTCAGGAGTCAAAGTGTTGCTCCTCCACAGTGGACCATGCGCAACACTGATGACAGgtactgcagttagcaacatcaatattaactattacaagatgtgaagtatacatgataagcgatgatatttttgttgacgtagttttcttcatttaatacatacctttctctgtcatgattgtag
- - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - AGTGGA