Sequence
atgc intronic sequence ATGC exonic sequenceACAAGGAGTTATAGGGAAAAGGGTTGATGAAATGGAATCAGGGTTTATGATGGCTCTTGATTACATGATCCAACTTGCAGACAAAGACCAAGACGAGAAGgtaaaccaattctgcattttccctctgaatgtacacaaaaatatttctagaattgacttgagttttgctacatagaacgaccaggatagctagaattgct...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G48470.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G48470.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os11g23790.2 (Oryza sativa), 5'ss of exon 2
ACAAGGAGTTATAGGGAAAAGGGTTGATGAAATGGAATCAGGGTTTATGATGGCTCTTGATTACATGATCCAACTTGCAGACAAAGACCAAGACGAGAAGgta-------aaccaattctgcattttccctctgaatgtacacaaaaatatttctagaattgacttgagttttgctacatagaacgaccaggatagctagaattgct
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TCAAGGAGTCATTGGGAAAAGAGTTGATGAGATGGAATCTGGCTTTCTAATGGCACTTGATTACATGATACAGCTTGCTGAGAAGGATAGTGACAATGAGgtactggaaaaactaatttcacattttgcca--aaattgatgtcaactcattcataattttca---aaggatgaatatgtt-aactgctctcctagctttg-ttgat
upper sequence: AT5G48470.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G079452_T02 (Zea mays), 5'ss of exon 2
ACAAGGAGTTATAGGGAAAAGGGTTGATGAAATGGAATCAGGGTTTATGATGGCTCTTGATTACATGATCCAACTTGCAGACAAAGACCAAGACGAGAAGgta---aaccaattctgcattttccctctgaatgtacacaaaaatatttctagaattgacttgagttttgctacatagaacgaccaggatagctagaattgct--
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ACAAGGAGTTATTGGGAAGAGGGTGGATGAGATGGAGTCAGGTTTTCTTATGGCACTTGATTACATGATACAACTTGCACAGAAGGACACAGATGATGAGgtacttggtagtcattgcctaactccaccaagtacctgtttgcata-----acagcttatttattcttcactaggcgttaccactcatttgcctatctttactaa
upper sequence: AT5G48470.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA03G22370.1 (Glycine max), 5'ss of exon 2
ACAAGGAGTTATAGGGAAAAGGGTTGATGAAATGGAATCAGGGTTTATGATGGCTCTTGATTACATGATCCAACTTGCAGACAAAGACCAAGACGAGAAGgtaaaccaattctgcattttccctctgaatgtacacaaaaatatttctagaattgacttgagttttgctacatagaacgaccaggatagctagaattgct-
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ACAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAATCCGATTTCATGATGGCCCTTGACTACATGATCCAACTTGCTGAGAATGACCAGGATGATAAGgtatgattttcaaacatatgagattataacttgtttagttaaagttaga-aatcaacatgttctgttccatcaagaaagttttgttttgcaattatatctt
upper sequence: AT5G48470.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA16G09430.1 (Glycine max), 5'ss of exon 2
ACAAGGAGTTATAGGGAAAAGGGTTGATGAAATGGAATCAGGGTTTATGATGGCTCTTGATTACATGATCCAACTTGCAGACAAAGACCAAGACGAGAAGgtaaaccaattctgcattttccctctgaatgtacacaaaaatatttctagaattgacttgagttttgctacatagaacgaccaggata-gctagaattgct--
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GCAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAGTCTGATTTCATGATGGCCCTTGACTACATGATCCAGCTTGCCGAGAATGACCAGGATGATAAGgta---tgattataacttgtttagtttaagttagaaatctacatgttctgttccatcgagaaagtttttgtttgcaattatatttttgtgacaaatctacatt
upper sequence: AT5G48470.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv00s0333g00020.t01 (Vitis vinifera), 5'ss of exon 2
ACAAGGAGTTATAGGGAAAAGGGTTGATGAAATGGAATCAGGGTTTATGATGGCTCTTGATTACATGATCCAACTTGCAGACAAAGACCAAGACGAGAAGgtaaac----caattctgcattttccctctgaatgtacacaaaaatatttctagaattgacttgagttttgctacatagaacgaccaggatagctagaattgct
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ACAAGGAGTCATTGGGAAGAGAGTTGATCAAATGGAGTCGGGGTTTATGATGGCACTAGATTACATGATACAACTTGCTGAAAAGGACCAGGATGATAAGgtatttatttcaagttttcatttttattttgg-tgcttgcataattactctttg--ttaattcccattt-gctttatattcctttcatttttgttatcaaaactMapped 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|86037755|gb|DR333510.1|DR333510EST: TGGCTCTTGATTACATGATCCAACTTGCAGACAAAGACCAAGACGAGAAG AGAAAGTCTTTACTAGAGGTCGTCAAGGAGACTGTCTTATCTCATCTCACC
genomic: TGGCTCTTGATTACATGATCCAACTTGCAGACAAAGACCAAGACGAGAAGgtaaaccaat ... ttggattcagAGAAAGTCTTTACTAGAGGTCGTCAAGGAGACTGTCTTATCTCATCTCACC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACAAGGAGTTATAGGGAAAAGGGTTGATGAAATGGAATCAGGGTTTATGATGGCTCTTGATTACATGATCCAACTTGCAGACAAAGACCAAGACGAGAAGgtaaaccaattctgcattttccctctgaatgtacacaaaaatatttctagaattgacttgagttttgctacatagaacgaccaggatagctagaattgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tccctctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatagaa