Sequence
atgc intronic sequence ATGC exonic sequenceGTTGGGGTGTATGATGAACAATCTCAGCCATCTTGAATCAGATTACTCTGAGTATGTTGAAGTTGATCCTACTGGAAGATATGGAAGAgtaaatttcctttatatctctcaataatttgtttgtttattatgatcatctcttttgttttgttgagttttttttgttatatgtgtgtgttcttgttgttttag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G28080.2 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G28080.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA20G37180.1 (Glycine max), 5'ss of exon 1
GTTGGGGTGTATGATGAACAATCTCAGCCATCTTGAATCAGATTACTCTGAGTATGTTGAAGTTGATCCTACTGGAAGATATGGAAGAgtaaatt-tcctttatatctctcaataatttgtttgtttattatgatcatctcttttgttttgttgagtttttt-ttgttatatgtgtgtgttcttgttgttttag
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-------------ATGAATGGGGTCACACACCTTGAACCAGATGAGTCTGAGTTTGTTGAAGTTGATCCAACTGGAAGATATGGCAGAgtatactattctctctttctctc-----ttcatctctccttcgggttcttcttttccctcagtttcatcatgatgttgttttttccatgt-ttcttgcag------
upper sequence: AT5G28080.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA10G30210.1 (Glycine max), 5'ss of exon 1
------------GTTGGGGTGTATGATGAACAATCTCAGCCATCTTGAATCAGATTACTCTGAGTATGTTGAAGTTGATCCTACTGGAAGATATGGAAGAgtaaatttcctttatatctctcaataatttgtttgtttattatgatcatctcttttgttttgttgagttttttttgttatatgtgtgtgttcttgttgttttag
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CATCAAAGTGCAGCAGATTCAGAGGATGAATGGGGTCACACACCTTGAACCAGATGAGTCTGAGTTTGTTGAAGTTGATCCAACTGGCAGATATGGCAGAgtatgctactctctctttttctcttcatctctatccttttggt--tctcctttttccctcagtttcatgattttttttccatgt-----ttcttgcag------
upper sequence: AT5G28080.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv05s0020g03380.t01 (Vitis vinifera), 5'ss of exon 1
GTTGGGGTGTATGATGAACAATCTCAGCCATCTTGAATCAGATTACTCTGAGTATGTTGAAGTTGATCCTACTGGAAGATATGGAAGAgtaaatttcctttatatctctcaataatttgtttgtttattatgatcatctcttttgttttgttgagttttttttgttatatgtgtgtgttcttgttgttttag
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-------TTAGGCATGAATTGCGTTACAGAGCTTGAACCAGATTATTCTGAGTTTGTTGAAGTTGATCCTACCGGTAGATATGGAAGGgtaatcttcttgttttccttggctttgttgctttgttttct-tcattttctattgactgtttttgggctgctatt-ttgcag----------------------
upper sequence: AT5G28080.2 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv14s0030g01660.t01 (Vitis vinifera), 5'ss of exon 1
--GTTGGGGT-GTATGATGAACAATCTCAGCCATCTTGAATCAGAT---TACTCTGAGTATGTTGAAGTTGATCCTACTGGAAGATATGGAAGAgta----aatttcctttatatctctcaataatttgtttgtttattatgatcatctcttttgttttgttgagttttttttgttatatgtgtgtgttcttgttgttttag-----
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AAATTAAAATTGGAGAATGAATGGTGTAATAAATCCTGAAGCAGATGATTACTCTGAGTTTGTGGAAGTTGATCCCACTGGAAGATATGGCAGAgtactcaaacttctctctcagtttctatctctttggctttctctgtttttcttggcttctgatttgggttctgattcctgggttccatttttcttttggttgtttggctgcagMapped 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|19876452|gb|AU237283.1|AU237283EST: CAGATTACTCTGAGTATGTTGAAGTTGATCCTACTGGAAGATATGGAAGA TACAATGAAGTTCTGGGTAAAGGATCTTCAAAGACTGT
genomic: CAGATTACTCTGAGTATGTTGAAGTTGATCCTACTGGAAGATATGGAAGAgtaaatttcc ... gttgttttagTACAATGAAGTTCTGGGTAAAGGATCTTCAAAGACTGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGGGGTGTATGATGAACAATCTCAGCCATCTTGAATCAGATTACTCTGAGTATGTTGAAGTTGATCCTACTGGAAGATATGGAAGAgtaaatttcctttatatctctcaataatttgtttgtttattatgatcatctcttttgttttgttgagttttttttgttatatgtgtgtgttcttgttgttttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA