Sequence
atgc intronic sequence ATGC exonic sequenceACCACCAACACCTCTTCCGCTGCAGCCAGTTGAGGACTCTCAACAATTCAATGTGCTTGATTTTGGAGCTAAGGGTGATGGAATGAGTGATGACACTCAGgtacagactcaaaagattcataatccgttacaaaattcaatctagttgttcttgactaatcaagaattttaatctcgctttcatgagaattgtttctaaa...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G60590.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G60590.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G179696_T03 (Zea mays), 5'ss of exon 1
ACCACCAACACCTCTTCCGCTGCAGCCAGTTGAGGACTCTCAACAATTCAATGTGCTTGATTTTGGAGCTAAGGGTGATGGAATGAGTGATGACACTCAGgtac--agactcaaaagattcataatccgttacaaaattcaatctagttgttcttgactaatcaagaattttaatctcgctttcatgagaatt---gtttctaaa
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GCAGCAGCCATCACAGCCGCCGCCAGCGACCTCGCAGGGTGCAGTATTCAATGTGGTTGATTTTGGAGCCAAGGGTGACGGAGTTACAGACGATACTAAGgtacatagcttcgccctgcaaatgctctgcttcaaacaaaactcca----ttataaaatcgtcaagcatcatgcattctttgagccagaaatctcaaattgcaa-
upper sequence: AT1G60590.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G037431_T01 (Zea mays), 5'ss of exon 1
ACCACCAACACCTCTTCCGCTGCAGCCAGTTGAGGACTCTCAACAATTCAATGTGCTTGATTTTGGAGCTAAGGGTGATGGAATGAGTGATGACACTCAGgtacag-actcaaaagattcataatccgttacaaaattcaatc-tagttgttcttgactaatcaagaattttaatctcgctttcatgagaattgtttctaaa
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GTCACAGCCGCCACCACCAGCAACCTCCTCGCAGCATGGTGCAGTATTCAATGTGGTTGATTTTGGAGCCAAGGGTGACGGAGTTACAGACGATACTAAGgtccgatagcttcgctgctctttttttcaaacaaaattccattataaatttgccaagcgtcatgcgttgtctgatccagaaatctcgaattgcaattcct--
upper sequence: AT1G60590.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA08G39340.1 (Glycine max), 5'ss of exon 1
ACCACCAACA--CCTCTTCCGCTGCAGCCAGTTGAGGACTCTCAACAATTCAATGTGCTTGATTTTGGAGCTAAGGGTGATGGAATGAGTGATGACACTCAGgtacagactcaaaagat----tcataatccgttacaaaattcaatctagttgttcttgactaatcaagaattttaatctcgctttcatgagaattgtttctaaa
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ACCACCAAAAGGTTACAATGGTGGTGGCCATTCTCCCACCACCACC--TTCAATGTGCTTGATTTTGGAGCCAAGGGAGATGGAAAATCTGATGACACAAAGgtaaactctttttgtaccttattacactcagcaaatggttttgatgtgaattctgctaacaagtttaacatgcaagactaagaattttcag--tttatcata--
upper sequence: AT1G60590.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA18G19670.1 (Glycine max), 5'ss of exon 1
-ACCACCAACACCT--CTTCCGCTGCAGCCAGTTGAGGACTCTCAACAATTCAATGTGCTTGATTTTGGAGCTAAGGGTGATGGAATGAGTGATGACACTCAGgtacagact-caaaagattcataat-ccgttacaaaattcaatctagttgttcttgactaatcaagaattttaatctcgctttcatgagaattgtttctaaa
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CACCACCAAAGGCTTACAATGGTGGTGGCCATTCTTCCGCCACCACC--TTCAATGTGCTAGATTTTGGAGCCAAGGGAGATGGAAAATCTGATGACACCAAggtaaactcttcctgaacctcattacactcactcagcaaatggttttgatgtacct--tctgctaacaagtttaacat-gcaagaccaagaattttcagtttaMapped 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|125281315|gb|EL295400.1|EL295400EST: TAAGGGTGATGGAATGAGTGATGACACTCAG GCGTTTGAAGCTGCATGGGCATCTGCCTGCAAAGTCGAGGCCTCAACGATG
genomic: TAAGGGTGATGGAATGAGTGATGACACTCAGgtacagactc ... aattctgcagGCGTTTGAAGCTGCATGGGCATCTGCCTGCAAAGTCGAGGCCTCAACGATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACCACCAACACCTCTTCCGCTGCAGCCAGTTGAGGACTCTCAACAATTCAATGTGCTTGATTTTGGAGCTAAGGGTGATGGAATGAGTGATGACACTCAGgtacagactcaaaagattcataatccgttacaaaattcaatctagttgttcttgactaatcaagaattttaatctcgctttcatgagaattgtttctaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaaagat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatcaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcgctttc