Sequence
atgc intronic sequence ATGC exonic sequenceGTTGTGAGGTATACAACCTGGGAACCGGAAAAGGAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATGgtaagaagatcacttctctccttctctctctctctctctcgctatacactcaaattcataagagtgtacgcacacatatgtgttgactctttacatcacaatgacttgatagtttgcaataatgtgtacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G64440.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G64440.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os09g15420.1 (Oryza sativa), 5'ss of exon 7
GTTGTGAGGTATACAACCTGGGAACCGGAAAAGGAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATGgtaag---aagatcacttctctccttctctctctctctctctcgctatacactcaaattcataagagtgtac-gcacacatatgtgttgactctttacatcacaatgacttgatagtttgcaataatgtgtacag
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GATGTCAAGCATACAACCTTGGAACAGGAAAGGGAACATCAGTGTTGGAAATAGTTAATGCATTTGAGAAAGTTTCTGGAAAGgtatgcctgatttgatatatttggacaagtgtacatgtttcttgcctgtccttttgacatgttatgttgtgctggttaccaaatttcctactcaattctt-----------------------------------
upper sequence: AT1G64440.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G138410_T01 (Zea mays), 5'ss of exon 7
GTTGTGAGGTATACAACCTGGGAACCGGAAAAGGAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATGgtaagaagatcacttctctccttctctctctctctctctcgctatacactcaaattcataagagtgtacgcacacatatgtgttgactctttacatcacaatgacttgatagtttgcaataatgtgtacag
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GATGTGAAGCATACAACCTTGGAACCGGAAAAGGAACATCAGTGTTGGAGATAGTCAATGCATTTGAGAAGGCTTCTGGAAAGgta-------cacctgatttaatatatttaggactccctccatttctttttag--ttgtcgctgtata-gtgcaattttgtactatctagcgaca--actaaaacgaaacgg-------------------
upper sequence: AT1G64440.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G469523_T02 (Zea mays), 5'ss of exon 2
GTTGTGAGGTATACAACCTGGGAACCGGAAAAGGAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATGgta-agaagatcacttc---tctccttctctctctctctctctcgctatacactcaaattcataagagtgtac-gcacacatatgtgttgactctttacatcacaatgacttgatagtttgcaataatgtgtacag-------
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GGTGTGAAGCGTACAACCTTGGAACCGGAAGAGGTACATCTGTGCTGGAGATTGTTAAAGCATTTGAGAAGGCTTCTGGGAAGgtatacaagataaaagaaaatttaggccttgcatgattattagcattttgcaatgcagcttacctaggtttactgccttgataagctttcg---tttatgctcctaagttgtgatttacaaggacaattttgctaccttgtag
upper sequence: AT1G64440.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA01G43540.2 (Glycine max), 5'ss of exon 6
-----------------GTTGTGAGGTATACAACCTGGGAACCGGAAAAGGAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATGgtaagaagatcacttctctccttctctctctctctctctcgctatacactcaaattcataagagtgtacgcacacatatgtgttgactctttacatcacaatgacttgatagtttgcaataatgtgtacag
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TCATGGTGTATTTACAGGTTGTGAGGTTTATAACCTGGGAACAGGAAAGGGAACATCAGTTTTGGAGATGGTTAGAGCTTTTGAAATGGCATCTGGAAAGgtaatagaataatgtatctttttctggtcttatatatgtca----attgtcaa---cataatcctggctgtcaactttaatgcc-attttttaaagcattttg--ttgtt---------------------
upper sequence: AT1G64440.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA01G43540.1 (Glycine max), 5'ss of exon 7
GTTGTGAGGTATACAACCTGGGAACCGGAAAAGGAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATGgtaagaagatcacttctctccttctctctctctctctctcgctatacactcaaattcataagagtgtacgcacacatatgtgttgactctttacatcacaatgacttgatagtttgcaataatgtgtacag
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GTTGTGAGGTTTATAACCTGGGAACAGGAAAGGGAACATCAGTTTTGGAGATGGTTAGAGCTTTTGAAATGGCATCTGGAAAGgtaatagaataatgtatctttttctggtcttatatatgtca----attgtcaa---cataatcctggctgtcaactttaatgcc-attttttaaagcattttg--ttgtt---------------------
upper sequence: AT1G64440.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA11G01940.3 (Glycine max), 5'ss of exon 7
GTTGTGAGGTATACAACCTGGGAACCGGAAAAGGAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATGgtaagaagatcacttctctccttctctctctctctctctcgctatacactcaaattcataagagtgtacgcacacatatgtgttgactctttacatcacaatgacttgatagtttgcaataatgtgtacag
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GTTGTGAGGTTTATAACCTGGGAACAGGAAAGGGAACATCAGTTTTGGAGATGGTTCGAGCTTTTGAGATGGCATCTGGAAAGgtgaatagaataatg-tatctttttctggtcttatatat-gcca-attgtcaa---cataatcctggccatcaactttaatgtc-attttttaaagcat------ttggttgt------------------
upper sequence: AT1G64440.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA08G02690.1 (Glycine max), 5'ss of exon 7
GTTGTGAGGTATACAACCTGGGAACCGGAAAAGGAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATGgtaagaagatcacttctctccttctctctctctctctctcgctatacactcaaattcataagagtgtacgcacacatatgtgttgac-tctttacatcacaatgacttgatagtttgcaataatgtgtacag
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GTTGTGAGGTTTATAACTTGGGAACAGGAAAGGGAACATCAGTTTTGGAGATGGTAAACGCTTTTGAACAGGCCTCTGGAAAGgtaacagacttatagctttatgtctgttcttgtatct---actatccattata--ttataaaccctgctgca-----attttttggcatttttatagaaatgcaatttgg----------------------
upper sequence: AT1G64440.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv02s0025g01580.t01 (Vitis vinifera), 5'ss of exon 7
GTTGTGAGGTATACAACCTGGGAACCGGAAAAGGAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATGgtaagaagatcacttctctccttctctctctctctctctcgctatacactcaaattcataagagtgtacgcacacatatgtgttgactctttacatcacaatgacttgatagtttgcaataatgtgtacag
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GCTGTGAAGTGTACAACTTGGGAACAGGAAAAGGAACATCGGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtgttga-acagtttaacatttcctactttaattcctctcttctggttttccaactcccaaagaaaagattgaacctttttctaagaactttttatttcta------------------------------
upper sequence: AT1G64440.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv02s0025g01560.t01 (Vitis vinifera), 5'ss of exon 7
GTTGTGAGGTATACAACCTGGGAACCGGAAAAGGAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATGgtaagaagatcacttctctccttctctctctctctctctcgctatacactcaaattcataagagtgtacgcacacatatgtgttgactctttacatcacaatgacttgatagtttgcaataatgtgtacag
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GGTGTGAAGTGTACAACTTGGGAACTGGGAAAGGAACTTCAGTTTTGGAGATGGTTGCAGCATTTGAGAAGGCATCTGGAAAGgtatcatatttgaatgtctgttttggttccccagattactga-atgtatctgcatttgtcat----tattcaaaactttgttttcttcgtttga---acaattacttg-----------------------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|86084442|gb|DR380201.1|DR380201EST: GWACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATG AAAATCCCACTGGTGAAGGTTGGAAGGAGACCAGGTGATGCAGAAACCGTC
genomic: GAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATGgtaagaagat ... atgtgtacagAAAATCCCACTGGTGAAGGTTGGAAGGAGACCAGGTGATGCAGAAACCGTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGTGAGGTATACAACCTGGGAACCGGAAAAGGAACAACAGTGTTGGAGATGGTTGATGCATTTGAGAAAGCTTCTGGAATGgtaagaagatcacttctctccttctctctctctctctctcgctatacactcaaattcataagagtgtacgcacacatatgtgttgactctttacatcacaatgacttgatagtttgcaataatgtgtacag
- - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - GAGATG