Sequence
atgc intronic sequence ATGC exonic sequenceAGATGAAAATGTCAATTCTTATTGGAGTTGCACAAATGAACCTCGGAATCATAATGAGCTTCTTTAATGCAAAATTCTTCAAAAGTGCTGTAAACATATGgtgagtattcaattttctgcccttgtcattacgtacttctcccagttcttcaattatctgcccttgtctgatctcacatggttccag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G21410.1 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G21410.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os03g14690.1 (Oryza sativa), 5'ss of exon 13
AGATGAAAATGTCAATTCTTATTGGAGTTGCACAAATGAACCTCGGAATCATAATGAGCTTCTTTAATGCAAAATTCTTCAAAAGTGCTGTAAACATATGgtgagtattcaattttctgc------ccttgtcattacgtacttctcccagttcttcaattat-------ctgcccttgtctgatctcacatggttccag-----
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AGATGAAGATGTCAATTCTTCTTGGAGTTGCACAAATGAACCTTGGAATTGTGATTAGTTACTTTAATGCGAAATTCTTCAGGAACAGTGTTAATGTGTGgtaagtttattgtctcgtgttgaatgcccttttatgtaacactctactttgagatgagattatgaccagattattctctattgctgctgtatgcttttgtaacag
upper sequence: AT2G21410.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os10g10500.1 (Oryza sativa), 5'ss of exon 13
AGATGAAAATGTCAATTCTTATTGGAGTTGCACAAATGAACCTCGGAATCATAATGAGCTTCTTTAATGCAAAATTCTTCAAAAGTGCTGTAAACATATGgtgagtattcaattt--------tctgcccttgtcattacgtacttctcccagttcttcaat--tatctgcccttgtctga----tctcacatggttccag----------------------------------------------
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AGATGAAGCTGTCTATTCTTATTGGAGTTGCACAAATGAACCTTGGAATAATGATGAGTTACTTTAACGCAAAGTTTTTCAGAAATGCTATTAATGTTTGgtaagtaagaatcttctatggaatatgccatgattgagttgtatgacaataagattacatatgatacatgatatttttttagaactattatattgttttacttaaaacagtaggccattctcattcagttgtgtaactatgtaacag
upper sequence: AT2G21410.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G104418_T01 (Zea mays), 5'ss of exon 4
AGATGAAAATGTCAATTCTTATTGGAGTTGCACAAATGAACCTCGGAATCATAATGAGCTTCTTTAATGCAAAATTCTTCAAAAGTGCTGTAAACATATGgtgagt--attcaattttctgcc-----cttgtcattacgtacttctcccagttcttcaattatct---gcccttgtctgatctc------acatggttccag------------------------------------------
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AGATGAAGATGTCCATTCTTCTTGGAGTTGCACAAATGAACCTTGGGATTGTGATCAGCTACTTCAATGCAAAATTTTTTAGGAACAGTCTTAATGTGTGgtaagtttattcaccttttagcagacaatttgacattccattttgagatgaggactacaacaatcgtgaagaagcatgtgatcctttaacagcgttgttacagacaacagattatgatttttccacgcttactcctttgaaacag
upper sequence: AT2G21410.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G058910_T01 (Zea mays), 5'ss of exon 13
AGATGAAAATGTCAATTCTTATTGGAGTTGCACAAATGAACCTCGGAATCATAATGAGCTTCTTTAATGCAAAATTCTTCAAAAGTGCTGTAAACATATGgtgag--tattcaattttctgcccttgtcattacgtacttctcccagttctt-caattatctgcccttgtc-tgatctcacatggttccag-------------------------------------------------------
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AGATGAAGATGTCGATTCTTCTTGGAGTTGCACAAATGAACCTTGGGATTGTGATTAGTTACTTCAATGCAAAATTTTTCAGGAACAGTATTAATGTGTGgtaagtttattcaccttttattttatcagacaatatgacattccattttgtgacgaggatctacaacaattgtgaagaagcagtccttcaacagcgtgtttcaatcatatactattgtttttttcacatgtactcatttgaaacag
upper sequence: AT2G21410.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA11G12120.1 (Glycine max), 5'ss of exon 13
AGATGAAAATGTCAATTCTTATTGGAGTTGCACAAATGAACCTCGGAATCATAATGAGCTTCTTTAATGCAAAATTCTTCAAAAGTGCTGTAAACATATGgtgagtattcaattttctgcccttgtcattacgtacttctccca--gttcttcaattatctgcccttgtctgatctcacatggttccag----------------------------------------------------------------------------------------------------------------
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AAATGAAAATGTCAATTCTTCTTGGAGTTGCTCAAATGAACCTTGGAATTGTGATGAGCTATTTCAATGCCATATTCTTTAGAAACAGCGTAAATGTGTGgtaagt---taatcggtaatatttatggtaaaatcttactctcgaggatagaaaatagaaatagatggggggggggggggtagttttgtgcagttatttgcatctgcaatcaacaatcaaatcactgattctttctatcagaataaacttacatactaattcaacattaatgtacttttttattcaatgtttccctctcag
upper sequence: AT2G21410.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA04G03010.1 (Glycine max), 5'ss of exon 14
AGATGAAAATGTCAATTCTTATTGGAGTTGCACAAATGAACCTCGGAATCATAATGAGCTTCTTTAATGCAAAATTCTTCAAAAGTGCTGTAAACATATGgtgagtattcaattttctgcccttgtcattacgtacttctcccagttcttcaattatctgcccttgtctgatctcacatggttccag
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AGATGAAGATGTCAATTCTGCTGGGGGTATCCCAGATGAACCTTGGAATCATAATGAGTTACTTTAATGCAAAATACTTCAAAAACAACATAAATATCTGgtaatag--caaaaaacaacttcagtt-taatgaacgtggtgtatggtgtatggtgttcattaattggttttccgatgaggcctcag
upper sequence: AT2G21410.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA12G04330.1 (Glycine max), 5'ss of exon 13
AGATGAAAATGTCAATTCTTATTGGAGTTGCACAAATGAACCTCGGAATCATAATGAGCTTCTTTAATGCAAAATTCTTCAAAAGTGCTGTAAACATATGgtgagt-attcaat-tttctgcccttgtcattacgtacttctcccagttcttcaattatctgcccttgtctgatctcacatggttccag-----------
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AAATGAAAATGTCTATTCTTCTTGGAGTTGCTCAAATGAACCTTGGAATTGTGATGAGCTATTTCAATGCCATATTCTTTAGAAATAGCGTAAATGTGTGgtaagttaatcgatatttatggtatgaggatagaaaatagaagggggggcgggggggaggggagaaaaaaaactactttgtagttttgtgcagttatttg
upper sequence: AT2G21410.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA06G03040.1 (Glycine max), 5'ss of exon 13
AGATGAAAATGTCAATTCTTATTGGAGTTGCACAAATGAACCTCGGAATCATAATGAGCTTCTTTAATGCAAAATTCTTCAAAAGTGCTGTAAACATATGgtgagtattcaattttctgcccttgtcattacgtac-ttctcccagttcttcaattatctgcccttgtctgatctcacatggttccag
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AGATGAAGATGTCAATTCTGCTGGGGGTATCCCAGATGAATCTTGGAATCATAATGAGTTACTTTAATGCAAAATACTTCGAAAACAACATAAATATCTGgtaatag--caaaaaacaactttagtt-taatgaacattgtctgtggtgtatggtgttcatcaattggtttttcgatgatgcctcag-
upper sequence: AT2G21410.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv03s0038g00290.t01 (Vitis vinifera), 5'ss of exon 13
AGATGAAAATGTCAATTCTTATTGGAGTTGCACAAATGAACCTCGGAATCATAATGAGCTTCTTTAATGCAAAATTCTTCAAAAGTGCTGTAAACATATGgtgagt-------attcaattttctgcccttgtcattacgtacttctcccagttctt------caattatctgcccttgtctgatctcacatggttccag
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AGATGAAAATGTCAATCCTTATAGGGGTGGCCCAAATGAATCTTGGAATCATATTGAGCTATTTCAATGCCAAATTCTTTCAGAATAGCCTAAATATATGgtgagtcagatataataatttttttaaaaattttattagagcatttttcaagctattgcaaagctatcatagaaaatagtagttagtcatttttttataaMapped 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|125273993|gb|EL288078.1|EL288078EST: ATAATGAGCTTCTTTAATGCAAAATTCTTCAAAAGTGCTGTAAACATATG GTTCCAGTTCGTT
genomic: ATAATGAGCTTCTTTAATGCAAAATTCTTCAAAAGTGCTGTAAACATATGgtgagtattc ... atggttccagGTTCCAGTTCGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATGAAAATGTCAATTCTTATTGGAGTTGCACAAATGAACCTCGGAATCATAATGAGCTTCTTTAATGCAAAATTCTTCAAAAGTGCTGTAAACATATGgtgagtattcaattttctgcccttgtcattacgtacttctcccagttcttcaattatctgcccttgtctgatctcacatggttccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT