Sequence
atgc intronic sequence ATGC exonic sequence...tgttttctctagatttatttctataagagtaaaatataggtttttatatgatctaacatattggtttttctatgagtaaagatttcttattttaattcagTGTAAGTGTATTTGGAGTATCGGCGAAGTCAATGCAATGCTCTTACGACGACAGAGGAAATAGTGTCCCAACAATCCTTCTCAGGATGCAAAAACGTCTA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G46710.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G46710.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os02g45600.1 (Oryza sativa), 3'ss of exon 1
tgttttctctagatttattt--ctataagagtaaaata-taggtttttatatgatctaacatattggtttt-tctatgagtaaagatttcttattttaattcagTGTAAGTGTATTTGGAGTATCGGCGAAGTCAATGCAATGCTCTTACGACGACAGAGGAAATAGTGTCCCAACAATCCTTCTCAGGATGCAAAAACGTCTA
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tcttttccttaaaagaactttgcagcctacctttattagtgaatttctagcaaagctcagaccctaacttagtttatgtttaa----tctatttccttacacagTGTGAGTGTATTTGGAGTTTCACCAACGTCCATGCAATGCTCATACGATAACAGAGGAAACAGTGTGCCAACAATACTATTGACCATGCAAAAGAAGTTA
upper sequence: AT2G46710.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA03G42090.1 (Glycine max), 3'ss of exon 1
------tgttttctctagattt-atttctataagagtaaaatataggtttttatatgatctaacatattggtttttctatgagtaaagatttcttattttaattcagTGTAAGTGTATTTGGAGTATCGGCGAAGTCAATGCAATGCTCTTACGACGACAGAGGAAATAGTGTCCCAACAATCCTTCTCAGGATGCAAAAACGTCTA
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gggagttgattgctttacctttcactttcatttatgtactaccctcttcctctcttttccttttaaatccatatttgaatgagt-------tcatatgttcatgcagTGCAAAGGTATTTGGAGTTTCTGCAAAGTCAATGCAGTGCTCTTATGATGAAAGGGGGAACAGTGTCCCAACGATTCTGCTGATGATGCAAAAGCGATTG
upper sequence: AT2G46710.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA19G44820.1 (Glycine max), 3'ss of exon 1
------tgttttctctagattt-atttctataagagtaaaatataggtttttatatgatctaacatattggtttttctatgagtaaagatttcttattttaattcagTGTAAGTGTATTTGGAGTATCGGCGAAGTCAATGCAATGCTCTTACGACGACAGAGGAAATAGTGTCCCAACAATCCTTCTCAGGATGCAAAAACGTCTA
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gagagttgattgctttacctttcactttcatatatgtactaccc---tcttcctctcttttcatttaa-aatctatttttgactgag---ttcatatgatcatgcagTGCTAAGGTATTTGGAGTTTCTGCAAAGTCAATGCAGTGCTCTTATGATGAAAGGGGGAACAGTGTCCCAACGATTCTGCTGATGATGCAAAAGCGATTGMapped 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|19877311|gb|AU238142.1|AU238142EST: CTTNCTTCTGAGCTCGAACCGGANGTTCCTCCTCGAGCTCCTAGCGCCCG TGTAAGTGTATTTGGAGTATCGGGCGAAAGTCAATGCAATGCTCTTAC
genomic: CTTCCTTCTGAGCTCGAACCGGAGGTTCCTCCTCGAGCTCCTAGCGCCAGgtccgttatt ... tttaattcagTGTAAGTGTATTTGGAGTATCGG-CGAA-GTCAATGCAATGCTCTTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgatctaacatattggtttttctatgagtaaagatttcttattttaattcagTGTAAGTGTATTTGGAGTATCGGCGAAGTCAATGCAATGCTCTTACGACGACAGAGGAAATAGTGTCCCAACAATCCTTCTCAGGATGCAAAAACGTCTA
tttcttatttt CT-rich tract
tatgagtaaagatttc TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgttttctctagatttatttctataagagtaaaatataggtttttatatgatctaacatattggtttttctatgagtaaagatttcttattttaattcagTGTAAGTGTATTTGGAGTATCGGCGAAGTCAATGCAATGCTCTTACGACGACAGAGGAAATAGTGTCCCAACAATCCTTCTCAGGATGCAAAAACGTCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - aaaatat
- - - - - - - - - - - - - - - - - - - ggttttt
- - - - - - - - - - - - - - - - - - - - - - - - - - ctaacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agtaaaga