Sequence
atgc intronic sequence ATGC exonic sequenceTGTGCTGCTAGAGGTGCTGATTTATTTGAAAGTATAGCTGCAGAAATCATCAGTGCAATGATACTAGGTGGAACAATGGCTAAGAAGTGCAAAATTGAAGgtgcaccatctctctttaaagttacttctggtatatgcaaatatataacttatggtgtgagttcctgactcataccgagaaaattaaatgaactgctagg...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G78920.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G78920.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os02g33490.1 (Oryza sativa), 5'ss of exon 8
TGTGCTGCTAGAGGTGCTGATTTATTTGAAAGTATAGCTGCAGAAATCATCAGTGCAATGATACTAGGTGGAACAATGGCTAAGAAGTGCAAAATTGAAGgtgcaccatctctctttaaagttacttctggtatatgcaaatatataact-tatggtgtgagttcctgactcataccgagaaaattaaatgaactgctagg--
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TGTGCCGCACGAGGGGCTGACCTTTTTGAGAGCATAGCAGCTGAAATTATCAGTGCAATGATACTCGGGGGAACAATGGCACAACGCTGCAAAATTGAAGgcaagtctcttttgcttgtcatgcaacatcattgataagaatgcgaaattgtccagtgacaattcctg---tgagctcctaaggctgtgttctttgctcagtg
upper sequence: AT1G78920.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G075900_T01 (Zea mays), 5'ss of exon 8
TGTGCTGCTAGAGGTGCTGATTTATTTGAAAGTATAGCTGCAGAAATCATCAGTGCAATGATACTAGGTGGAACAATGGCTAAGAAGTGCAAAATTGAAGgtgcaccatctctctttaaagt-tacttctggtatatgcaaatatataacttatggtgtgagttcctgactcataccgagaaaattaaatgaactgctagg
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TGTGCTGCCCGAGGCGCTGATCTTTTTGAGAGCATAGCAGCAGAAATTATCAGTGCAATGATACTTGGAGGAACAATGGCACAGCGCTGTAAAATTGAGGgcaagtctcttttgcttaccctctaatatttgtcagtaagaatactggccacagcttgcaagtggttt-ctaatattcttggtatcataagttcttattaa
upper sequence: AT1G78920.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA07G00350.1 (Glycine max), 5'ss of exon 8
TGTGCTGCTAGAGGTGCTGATTTATTTGAAAGTATAGCTGCAGAAATCATCAGTGCAATGATACTAGGTGGAACAATGGCTAAGAAGTGCAAAATTGAAGgtgcaccatctctctttaaagttacttctggtatatgcaaatatataact-tatggtgtgagttcctgactcataccg-agaaaattaaatgaactgctagg-
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TGTGCTGCTCGAGGTGCTGATCTTTTTGAAAGTATTGCAGCTGAAATAATCAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgcaagtaactgagttacaccattttgtgcctttcttgcttacttttggttatcagacttgtattgatg-ctcatctaatatgatgttttctcttttgtttcag
upper sequence: AT1G78920.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA08G24120.2 (Glycine max), 5'ss of exon 8
TGTGCTGCTAGAGGTGCTGATTTATTTGAAAGTATAGCTGCAGAAATCATCAGTGCAATGATACTAGGTGGAACAATGGCTAAGAAGTGCAAAATTGAAGgtgcaccatctctctttaaagttacttctggtatatgcaaatatataact-tatggtgtgagttcctgactcataccg-agaaaattaaatgaactgctagg-
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TGTGCTGCTCGAGGTGCTGATCTTTTTGAAAGTATTGCAGCTGAAATAATTAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTGTAAAATTGCAGgcaagtacttgagttacaccattttgtccctttcttgcttacttttggttatcagacttgtattcatg-ctcatctaatatgatgttttctcttttgtttcag
upper sequence: AT1G78920.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA08G24120.4 (Glycine max), 5'ss of exon 7
------------TGTGCTGCTAGAGGTGCTGATTTATTTGAAAGTATAGCTGCAGAAATCATCAGTGCAATGATACTAGGTGGAACAATGGCTAAGAAGTGCAAAATTGAAGgtgcaccatctctctttaaagttacttctggtatatgcaaatatataact-tatggtgtgagttcctgactcataccg-agaaaattaaatgaactgctagg-
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AATGTGGGAGATTGTGCTGCTCGAGGTGCTGATCTTTTTGAAAGTATTGCAGCTGAAATAATTAGTGCCATGATACTTGGTGGAACAATGGCACAACGCTgtaaaattgcaggcaagtacttgagttacaccattttgtccctttcttgcttacttttggttatcagacttgtattcatg-ctcatctaatatgatgttttctcttttgtttcag
upper sequence: AT1G78920.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv09s0054g00700.t01 (Vitis vinifera), 5'ss of exon 8
TGTGCTGCTAGAGGTGCTGATTTATTTGAAAGTATAGCTGCAGAAATCATCAGTGCAATGATACTAGGTGGAACAATGGCTAAGAAGTGCAAAATTGAAGgtgcac-catctctctttaaagttacttctggtatatgcaaatatataacttatggtgtgagttcc-tgactcataccgagaaaattaaatgaactgctagg
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TGTGCTGCTAGAGGTGCTGATCTGTTTGAAAGTATTGCAGCTGAAATCATCAGTGCTATGATACTGGGTGGAACAATGGCTCAACGTTGCAAGATTGAAGgcaagtaccttggtcttgatgtttaaaggaagtgccttgcttgatagaggtt-tcttttgtgtaacatagttcatgttcaagaatggagagagatagagag-
upper sequence: AT1G78920.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: PP1S105_42V6.2 (Physcomitrella patens), 5'ss of exon 8
TGTGCTGCTAGAGGTGCTGATTTATTTGAAAGTATAGCTGCAGAAATCATCAGTGCAATGATACTAGGTGGAACAATGGCTAAGAAGTGCAAAATTGAAGgtgcaccatctc------------tctttaaagttacttctggtatatgcaaatatataacttatggt---gtgagttcctgactcatac--cgagaaaattaaatgaactgctagg------
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TGTGCTGCCCGTGGTGCGGATTTATTTGAAAGTATTGCAGCTGAAATTATCAGTGCCATGATTCTTGGTGGCACCATGGCCAAGCGCTGCAAACTAGACGgtaagtttccttattgtgtttgtgtgtttgaagtccgatatagtgttctttgttctgctgcgcaggatcttgtcatcttacaatccatacaccactaattttcactgactcgcttttttgcag
upper sequence: AT1G78920.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: PP1S28_200V6.1 (Physcomitrella patens), 5'ss of exon 8
TGTGCTGCTAGAGGTGCTGATTTATTTGAAAGTATAGCTGCAGAAATCATCAGTGCAATGATACTAGGTGGAACAATGGCTAAGAAGTGCAAAATTGAAGgtgcaccatctctct-ttaaagttacttctggtatatgcaaatatataacttatggtgtgagttcctgactcataccgag--aaaattaaatgaactgctagg-------
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TGTGCTGCCCGTGGTGCCGATTTATTTGAAAGTATTGCAGCTGAAATCATCAGTGCCATGATTCTTGGTGGTACAATGGCCAAACGCTGCAAACTAGAAGgtcagtttcttcattatttatgtcacatcaatttttttctgcctcgta--tgatcgagatatgtagaggtccatgcacaactaatattcatttgattgatatttttgcag
upper sequence: AT1G78920.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: EFJ13082 (Selaginella moellendorffii), 5'ss of exon 7
TGTGCTGCTAGAGGTGCTGATTTATTTGAAAGTATAGCTGCAGAAATCATCAGTGCAATGATACTAGGTGGAACAATGGCTAAGAAGTGCAAAATTGAAGgtgcaccatctctctttaaagttacttctggtatatgcaaatatataacttatggtgtgagttcctgactcataccgagaaaattaaatgaactgctagg
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TGTGCTGCTCGTGGTGCTGATTTATTCGAAAGTATTGCTGCGGAGATAATTAGCGCCATGATTCTGGGAGGCACTATGGTCAAAAGATGCAAGCTAGAAGgtttg-----tgtgttagatgttgtcatcgaagt-tttaagtttg-gttcgctgacgcag----------------------------------------
upper sequence: AT1G78920.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: EFJ14101 (Selaginella moellendorffii), 5'ss of exon 7
TGTGCTGCTAGAGGTGCTGATTTATTTGAAAGTATAGCTGCAGAAATCATCAGTGCAATGATACTAGGTGGAACAATGGCTAAGAAGTGCAAAATTGAAGgtgcac-catctctctttaaagttacttctggtatatgcaaatatataacttatggtgtgagttcctgactcataccgagaaaattaaatgaactgctagg
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TGTGCTGCTCGTGGTGCTGATTTATTCGAAAGTATTGCTGCGGAGATAATTAGCGCCATGATTCTGGGAGGCACTATGGTCAAAAGATGCAAGCTAGAAGgtttgtgtgttagatgttgtcatcgtttaagtttggttcgttgacgcag----------------------------------------------------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|164054762|gb|ES010997.1|ES010997EST: GAAGTGCAAAATTGAAG ATCCATCAGGCTTTATCC-TTTTCCTCTAGTTGTTCATTCTTTTGACTTGA
genomic: GAAGTGCAAAATTGAAGgtgcaccatc ... tattatgcagATCCATCAGGCTTTATCCTTTTTCCTCTAGTTGTTCATTCTTTTGACTTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTGCTGCTAGAGGTGCTGATTTATTTGAAAGTATAGCTGCAGAAATCATCAGTGCAATGATACTAGGTGGAACAATGGCTAAGAAGTGCAAAATTGAAGgtgcaccatctctctttaaagttacttctggtatatgcaaatatataacttatggtgtgagttcctgactcataccgagaaaattaaatgaactgctagg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cgagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgaac