Sequence
atgc intronic sequence ATGC exonic sequenceGACTGTTGATCACAGGCTAGAAGAGAATGTTGAAGAAAGAGAACGCATAACTGCTAGTGGAGGTGAGGTCGGAAGACTCAATGTATTTGGTGGCAATGAGgtatgatcatttccagtgaatttaagttactgtttcattgtgttttggctgtggtgggtttgtaatgtgtaagaagtccttggattttcaatgatattaatgtgctttgattatgccaatgcaatag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G09160.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G09160.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA19G41810.2 (Glycine max), 5'ss of exon 4
GACTGTTGATCACAGGCTAGAAGAGAATGTTGAAGAAAGAGAACGCATAACTGCTAGTGGAGGTGAGGTCGGAAGACTCAATGTATTTGGTGGCAATGAGgtatgatcatttccagtgaatttaagttactgtttcattgtgttttggctgtggtgggtttgtaatgtgtaagaagtccttggattttcaatgatattaatgtgctttgattatgccaatgcaatag
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GACAGTTGATCACAGGCTGGAAGAGAATGCAGAAGAGAGGGAGCGCGTTACTGCCAGCGGTGGTGAAGTAGGAAGACTCAATGTATTTGGAGGCAATGAGgtatgat-gcaatcacc--attgtgctttctaataaagattgcttaaact-tagtagttttg--gtttgctttatgtttatag--------------------------------------------
upper sequence: AT1G09160.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G38270.1 (Glycine max), 5'ss of exon 4
GACTGTTGATCACAGGCTAGAAGAGAATGTTGAAGAAAGAGAACGCATAACTGCTAGTGGAGGTGAGGTCGGAAGACTCAATGTATTTGGTGGCAATGAGgtatgat-catttccagtgaatttaagttactgtttcattgtgttttggctgtggtgggtttgtaatgtgtaagaagtccttggattttcaatgatattaatgtgctttgattatgccaatgcaatag
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GACAGTTGATCACAGATTGGAAGAAAATGTAGAAGAGAGGGATCGCGTTACTGCCAGTGGTGGTGAAGTAGGAAGACTCAATGTATTTGGAGGCAATGAGgtatggtgtaatctttatattcctttctaatcaggactttttaactagcctgttttggttccttaatacatttatag---------------------------------------------------
upper sequence: AT1G09160.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G29060.1 (Glycine max), 5'ss of exon 4
GACTGTTGATCACAGGCTAGAAGAGAATGTTGAAGAAAGAGAACGCATAACTGCTAGTGGAGGTGAGGTCGGAAGACTCAATGTATTTGGTGGCAATGAGgtatgat----catttccagtgaatttaagttactgtttcattgtgttttggctgtggtgggtttgtaatgtgtaagaagtccttggattttcaatgatattaatgtgctttgattatgccaatgcaatag
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GACAGTTGATCACAGATTGGAAGAAAATGCAGAAGAGAGGGAACGCGTTACTGCCAGTGGTGGTGAAGTAGGAAGACTCAATGTATTTGGAGGCAATGAGgtacaatgtaatctttctattcctttctaatcaggactttttcac---tagcctgttttggttccttaatacatctatag---------------------------------------------------
upper sequence: AT1G09160.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA03G39260.1 (Glycine max), 5'ss of exon 4
GACTGTTGATCACAGGCTAGAAGAGAATGTTGAAGAAAGAGAACGCATAACTGCTAGTGGAGGTGAGGTCGGAAGACTCAATGTATTTGGTGGCAATGAGgtatgat-cattt--ccagtgaatttaag-ttactgtttcattgtgttttggctgtggtgggtttgtaatgtgtaagaagtccttggattttcaatgatattaatgtgctttgattatgccaatgcaatag
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GACAGTTGATCACAGACTGGAAGAGAATGCAGAAGAGAGGGAGCGTGTTACTGCCAGCGGTGGTGAAGTAGGAAGACTCAATGTATTTGGAGGCAATGAGgtatgatgcaatcaccttttgcgctcatgctttctaataaagattgtttaaact-tagtagttttggtttgcgttat--gtttatag--------------------------------------------
upper sequence: AT1G09160.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0060g01580.t01 (Vitis vinifera), 5'ss of exon 4
GACTGTTGATCACAGGCTAGAAGAGAATGTTGAAGAAAGAGAACGCATAACTGCTAGTGGAGGTGAGGTCGGAAGACTCAATGTATTTGGTGGCAATGAGgtatgat-catttccagtgaatttaagttactgtttcattgtgttttggctgtggtgggtttgtaatgtgtaagaagtccttggattttcaatgatattaatgtgctttgattatgccaatgcaatag
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AACAGTTGATCACAGGCTGGAAGAGAATGCAGAAGAAAGGGAACGTGTCACTGCAAGTGGGGGTGAAGTTGGAAGGCTGAATGTTTTTGGGGGCAATGAGgtataacatatttgatgcccatacaactcaaagctgaaagaaattttaattg------attattcccttgt--------cttgaatcttca-tgggtcaaatgtatatggtttgtag-----------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|164023217|gb|ES072583.1|ES072583EST: CTGCTAGTGGAGGTGAGGTCGGAAGACTCAATGTATTTGGTGGCAATGAG GTCGGCCCACTACGATGCTGGCCTGGTGGTTT
genomic: CTGCTAGTGGAGGTGAGGTCGGAAGACTCAATGTATTTGGTGGCAATGAGgtatgatcat ... aatgcaatagGTCGGCCCACTACGATGCTGGCCTGGTGGTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GACTGTTGATCACAGGCTAGAAGAGAATGTTGAAGAAAGAGAACGCATAACTGCTAGTGGAGGTGAGGTCGGAAGACTCAATGTATTTGGTGGCAATGAGgtatgatcatttccagtgaatttaagttactgtttcattgtgttttggctgtggtgggtttgtaatgtgtaagaagtccttggattttcaatgatattaatgtgctttgattatgccaatgcaatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG