Sequence
atgc intronic sequence ATGC exonic sequenceACGTGAAGCCACTAGCAAAGGAGCTTATAGAATATTTGGAAGTAAGCGAACAAGATTTTAAAGGAGATCTTACTGCAAAGATATGCTCCATAGTTGAAAAgtaagttgcgcaactcttcagccagcatgtacagagatttcattcttctagtatatggtaactgaacattttaatttgtatcaaagttgtgcgttaagctcaattaatagtaatcccttaagtttatcagaatgctggcctggataaatggtgtccatcagacctaattggttactgaattagtatttcctttctgctag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G60070.2 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G60070.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os02g56110.2 (Oryza sativa), 5'ss of exon 8
ACGTGAAGCCACTAGCAAAGGAGCTTATAGAATATTTGGAAGTAAGCGAACAAGATTTTAAAGGAGATCTTACTGCAAAGATATGCTCCATAGTTGAAAAgtaagttgcgcaactcttcagccagcatgtacagagatttcattcttctagtatatggtaactgaacattttaatttgtatcaaagttgtgcgttaagctcaattaatagtaatcccttaagtttatcagaatgctggcctggataaatggtgtccatcagacctaattggttactgaattagtatttcctttctgctag
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ATGTAAAGCCTTTGACTAAAGAGCTTGTCGACTACTTAGATTCAGCTGATCCGGATTTCAAAGAAGATCTCACTGCCAAGATATGCTCAATAGTTGAAAAgttagt-------------atccaatatatacacatattttaatttttcctgctaaattaa---ggcacttttaacagtgttgcatccctgc--tag-------------------------------------------------------------------------------------------------------
upper sequence: AT1G60070.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G030144_T01 (Zea mays), 5'ss of exon 8
ACGTGAAGCCACTAGCAAAGGAGCTTATAGAATATTTGGAAGTAAGCGAACAAGATTTTAAAGGAGATCTTACTGCAAAGATATGCTCCATAGTTGAAAAgtaagttgcgcaactcttcagccagcatgtacagagatttcattcttctagt-atatggtaactgaacattttaatttgtatcaaagttgtgcgttaagctcaattaatagtaatcccttaagtttatcagaatgctggcctggataaatggtgtccatcagacctaattggttactgaattagtatttcctttctgctag
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ATGTAAAGCCATTGACTAAGGAACTTGTTGATTACCTTGAAGTGAGTGATCAAGATTTCAAGGAAGACCTCACTGCTAAGATATGCTCAATAGTTGAAAAgtaagttac-taattctggatccagcattt-------ctccttgctgtggatgacttattgtttgtgcagtt--atgttctctacttctctgcatgcattttgaagaaaa-------------------------------------------------------------------------------------------
upper sequence: AT1G60070.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G030144_T03 (Zea mays), 5'ss of exon 7
ACGTGAAGCCACTAGCAAAGGAGCTTATAGAATATTTGGAAGTAAGCGAACAAGATTTTAAAGGAGATCTTACTGCAAAGATATGCTCCATAGTTGAAAAgtaagttgcgcaactcttcagccagcatgtacagagatttcattcttctagt-atatggtaactgaacattttaatttgtatcaaagttgtgcgttaagctcaattaatagtaatcccttaagtttatcagaatgctggcctggataaatggtgtccatcagacctaattggttactgaattagtatttcctttctgctag
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--------------------GAACTTGTTGATTACCTTGAAGTGAGTGATCAAGATTTCAAGGAAGACCTCACTGCTAAGATATGCTCAATAGTTGAAAAgtaagttac-taattctggatccagcattt-------ctccttgctgtggatgacttattgtttgtgcagtt--atgttctctacttctctgcatgcattttgaagaaaa-------------------------------------------------------------------------------------------
upper sequence: AT1G60070.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G054210_T01 (Zea mays), 5'ss of exon 8
ACGTGAAGCCACTAGCAAAGGAGCTTATAGAATATTTGGAAGTAAGCGAACAAGATTTTAAAGGAGATCTTACTGCAAAGATATGCTCCATAGTTGAAAAgtaagttgcgcaactcttcagccagcatgtacagagatttcattcttctagtatatggtaactgaacattttaatttgtatcaaagttgtgcgttaagctcaattaatagtaatcccttaagtttatcagaatgctggcctggataaatggtgtccatcagacctaattggttactgaattagtatttcctttctgctag
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ATGTAAAGCCTTTGACTAAAGAGCTCATCGATTACTTAAACATAGCGGATCCAGATTTTATAGGAGATCTCACAGTAAATATATGCTCTATAGTTGAAAAgttagt-----atctttttattttgttggttctta----ttgacttatgggtgtttaacaatgttgcattgccaatag--------------------------------------------------------------------------------------------------------------------------
upper sequence: AT1G60070.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G017421_T02 (Zea mays), 5'ss of exon 8
ACGTGAAGCCACTAGCAAAGGAGCTTATAGAATATTTGGAAGTAAGCGAACAAGATTTTAAAGGAGATCTTACTGCAAAGATATGCTCCATAGTTGAAAAgtaagttgcgcaactcttcagccagcatgtacagagatttcattcttctagtatatggtaactgaacattttaatttgtatcaaagttgtgcgttaagctcaattaatagtaatcccttaagtttatcagaatgctggcctggataaatggtgtccatcagacctaattggttactgaattagtatttcctttctgctag
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ATGTAAAGCCATTGACTAAGGAACTTGTTGATTACCTTGAAGTGAGTGATCAAGATTTCAAGGAAGACCTCACTGCTAAAATATGCTCAATAGTTGAAAAgtaagttac-taattctgcatccagcattta--------------tccttgtggatgacttatgatctgtgcaattttgaagaaaattctg----atgtgca--tgttcctcatttcccca-------------------------------------------------------------------------------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|124816130|gb|EH900996.1|EH900996EST: CAAGATTTTAAAGGAGATCTTACTGCAGAGATATGCTCCATAGTTGAAAA GTTTGCTCCAGAGAAAATCTGG
genomic: CAAGATTTTAAAGGAGATCTTACTGCAAAGATATGCTCCATAGTTGAAAAgtaagttgcg ... tttctgctagGTTTGCTCCAGAGAAAATCTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACGTGAAGCCACTAGCAAAGGAGCTTATAGAATATTTGGAAGTAAGCGAACAAGATTTTAAAGGAGATCTTACTGCAAAGATATGCTCCATAGTTGAAAAgtaagttgcgcaactcttcagccagcatgtacagagatttcattcttctagtatatggtaactgaacattttaatttgtatcaaagttgtgcgttaagctcaattaatagtaatcccttaagtttatcagaatgctggcctggataaatggtgtccatcagacctaattggttactgaattagtatttcctttctgctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG