Sequence
atgc intronic sequence ATGC exonic sequence...ttgttaaatatctgtttgctggaagtattttgattttcttgttgctgaagaacccttttgagttttatctaacagtgttgcatttggttggttgatgcagACCCTTGGAATATCGCATGCTTTTTCTTCGTTTATTTGGCTGTGCGGCCCAATTACAGGCCTTGTG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G02860.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G02860.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA08G40980.1 (Glycine max), 3'ss of exon 1
--ttgttaaatatctgtttgctggaagtattttgattttcttgttgctgaagaacccttttgagttttatctaacagtgttgc-atttggttggttgatgcagACCCTTGGAATATCGCATGCTTTTTCTTCGTTTATTTGGCTGTGCGGCCCAATTACAGGCCTTGTG
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aattgttgagtttgcaat-gctgaaggggtgtgtttgtgtctatagcgttatatttagctttccgattaactatgtgctttgttgtttcgtt--ttggtgcagACGTTGGGAATAGGACATGCGTTTTCTTCGTTTATTTGGCTCTGTGGCCCCATTACAGGTCTTGTG
upper sequence: AT2G02860.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA18G15950.1 (Glycine max), 3'ss of exon 1
ttgttaaatatctgtttgctggaagtattttgattttcttgt--tgctgaagaacccttttgagttttatctaacagtgttgcatttggttggttgatgcagACCCTTGGAATATCGCATGCTTTTTCTTCGTTTATTTGGCTGTGCGGCCCAATTACAGGCCTTGTG
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atttgcaatgttgaaggagtgagagagtgcttgtgtgtgtgcagtgtttatattcaactttccgattaactgtgtgcttagttattgcgtt--ttggtgcagACGTTGGGAATAGGACATGCGTTTTCTTCGTTTATTTGGCTCTGTGGCCCCATTACAGGTCTTGTG
upper sequence: AT2G02860.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv01s0026g01960.t01 (Vitis vinifera), 3'ss of exon 1
-ttgttaaatatctgtttgctggaagtattttga--ttttcttgttgctgaagaacccttttgagttttatctaacagtgttgcatttggttggttgatgcagACCCTTGGAATATCGCATGCTTTTTCTTCGTTTATTTGGCTGTGCGGCCCAATTACAGGCCTTGTG
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tctgtcctttccatatcaac-aattgtgtttaaagtttttattgtgcttatacaaatttctta--tttgattaattatgttttcatttgaataactgatgcagACACTTGGAATAGAGCATGCCTTTTCTTCATTTATCTGGCTTTGTGGCCCTATTACAGGCCTTGTGMapped 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|116439432|gb|EG482024.1|EG482024EST: TTCAATTTGGTTGGGCATTGCAACTTTCTCTTCTTACTCCTTATATTCAG ACCCTTGGAATATCGCATGCTTTCTCTTCGTTTATTTGGCTGTGCGGCCCA
genomic: TTCAATTTGGTTGGGCATTGCAACTTTCTCTTCTTACTCCTTATATTCAGgtacttacta ... gttgatgcagACCCTTGGAATATCGCATGCTTTTTCTTCGTTTATTTGGCTGTGCGGCCCA
EST:
gi|116439431|gb|EG482023.1|EG482023EST: TTCAATTTGGTTGGGCATTGCAACTTTCTCTTCTTACTCCTTATATTCAG ACCCTTGGAATATCGCATGCTTTTTCTTCGTTTATTTGGCTGTGCGGCCCA
genomic: TTCAATTTGGTTGGGCATTGCAACTTTCTCTTCTTACTCCTTATATTCAGgtacttacta ... gttgatgcagACCCTTGGAATATCGCATGCTTTTTCTTCGTTTATTTGGCTGTGCGGCCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaagaacccttttgagttttatctaacagtgttgcatttggttggttgatgcagACCCTTGGAATATCGCATGCTTTTTCTTCGTTTATTTGGCTGTGCGGCCCAATTACAGGCCTTGTG
ttttatctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgttaaatatctgtttgctggaagtattttgattttcttgttgctgaagaacccttttgagttttatctaacagtgttgcatttggttggttgatgcagACCCTTGGAATATCGCATGCTTTTTCTTCGTTTATTTGGCTGTGCGGCCCAATTACAGGCCTTGTG
- - - - - - - - - - - - - - - - - - - - - - -tgaagaa