Sequence
atgc intronic sequence ATGC exonic sequenceAAAATCAATGTGAAGAAGGCTGTTGATTACATTGTGAGCTGCAAAAACCTGGATGGTGGTTTTGGGTGCTCACCTGGAGCGGAGTCTCATGCAGGACAGAgtatgttcatgctaatttaactttttaaccctgggatcatcattcaatatgtgtctagatgactttactgaatatcattgcagcatcatatggtaattaaagggcattgattctttatgttgctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G12070.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G12070.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os08g40140.1 (Oryza sativa), 5'ss of exon 5
AAAATCAATGTGAAGAAGGCTGTTGATTACATTGTGAGCTGCAAAAACCTGGATGGTGGTTTTGGGTGCTCACCTGGAGCGGAGTCTCATGCAGGACAGAgtatgttcatgctaatttaactttttaaccctgggatcatcat-tcaatatgtgtctagatgactttactgaatatcattgcagcatcatatggtaattaaagggcattgattctttatgttgctgcag
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AAAATTAATGTGCAAAAAGCTGTTGATTATATTGTAAGCTGTAAGAACTTGGATGGTGGATTTGGAGCTATGCCAGGAGGTGAATCACACGCTGGGCAGAgtatgtcttttcttgtttg-ctatatgtcctgttttttatggtacctaagtagaactagaag---ttaattgatgctttaggatgattatataatatcaagaaa-------------------------
upper sequence: AT3G12070.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G11710.1 (Glycine max), 5'ss of exon 6
AAAATCAATGTGAAGAAGGCTGTTGATTACATTGTGAGCTGCAAAAACCTGGATGGTGGTTTTGGGTGCTCACCTGGAGCGGAGTCTCATGCAGGACAGAgtatgttcatgctaatttaactttttaaccctgggatcatcattcaatatgtgtctagatgactttactgaatatcattgcagcatcatatggtaattaaagggcattgattctttatgttgctgcag
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AAAATCAATGTGGAGAAGGCAGTGAAGTACATTATAAGTTGCAAAAATATGGATGGTGGTTTTGGTTGCACTCCTGGTGGGGAATCTCATGCTGGTCAAAgtatgtca----taaatta--ttcatgatttttagtttgttattaatt---tccctacgttactt-acccaatgtgtgtacta-atacttttttccttcaaagattgtgtt-----------------
upper sequence: AT3G12070.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA05G28630.1 (Glycine max), 5'ss of exon 6
AAAATCAATGTGAAGAAGGCTGTTGATTACATTGTGAGCTGCAAAAACCTGGATGGTGGTTTTGGGTGCTCACCTGGAGCGGAGTCTCATGCAGGACAGAgtatgttcatgctaatttaactttttaaccctgggatcatcattcaatatgtgtctagatgactttactgaatat-cattgcagcatcatatggtaattaaagggcattgattctttatgttgctgcag
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---------------------------GGCTTTATAAGTTGCAAAAATATGGATGGTGGTTTTGGGTGCACTCCTGGTGGGGAATCTCATGCTGGTCAAAgtatgtca----taaatta--ttcatgatcttttgttagttattaatt---tccctacgttactt-actcaatgtgtgtactaatactactttttccttcaaagattgtg-------------------
upper sequence: AT3G12070.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv12s0134g00150.t01 (Vitis vinifera), 5'ss of exon 6
AAAATCAATGTGAAGAAGGCTGTTGATTACATTGTGAGCTGCAAAAACCTGGATGGTGGTTTTGGGTGCTCACCTGGAGCGGAGTCTCATGCAGGACAGAgtatgttcatgctaatttaactttttaaccctgggatcatcattcaatatgtgtctagatgactttactgaatatcattgcagcatcatatggtaattaaagggcattgattctttatgttgctgcag-
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AAAATCAATGTGGAGAAGGCTGTGAACTACATCGTGAGTTGCAAAAATCTGGATGGTGGGTTTGGATGTACACCTGGTGCAGAATCCCATGCAGGGCAGAgtatgtt-------at---acattttataccagagttcttttacgagtctttagtcatttgttagtatttaaca--agtgaagcttttttt---------------ttg--tttttgttttgctccagc
upper sequence: AT3G12070.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv15s0024g00080.t01 (Vitis vinifera), 5'ss of exon 6
AAAATCAATGTGAAGAAGGCTGTTGATTACATTGTGAGCTGCAAAAACCTGGATGGTGGTTTTGGGTGCTCACCTGGAGCGGAGTCTCATGCAGGACAGAgtatgtt---catgctaatttaactttttaaccctgggatcatcattcaatatgtgtctagatgactttactgaatatcattgcagcatcatatggtaattaaagggcattgattctttatgttgctgcag
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AAAATTAATGTTGAGAAGGCAGTGAACTACATTGTGAGTTGCAAAAATCTGGATGGTGGATTTGGATGTACACCTGGTGCGGAGTCCCATGCAGGGCAAAgtatgtcatacatgttacaatggagttttatttttcaagtc----ttcaatttttttctag-------tattgaaca--attccagcctttttt--tagtgctccagtgtcagtt----------------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|86076013|gb|DR371770.1|DR371770EST: CTGGAGCGGAGTCTCATGCAGGACAGA TTTTCTGTTGTGTGGGTGCTCTTGCTATCACCGGGAATCTCCATCGTGTTG
genomic: CTGGAGCGGAGTCTCATGCAGGACAGAgtatgttcat ... gttgctgcagTTTTCTGTTGTGTGGGTGCTCTTGCTATCACCGGGAATCTCCATCGTGTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAATCAATGTGAAGAAGGCTGTTGATTACATTGTGAGCTGCAAAAACCTGGATGGTGGTTTTGGGTGCTCACCTGGAGCGGAGTCTCATGCAGGACAGAgtatgttcatgctaatttaactttttaaccctgggatcatcattcaatatgtgtctagatgactttactgaatatcattgcagcatcatatggtaattaaagggcattgattctttatgttgctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG