Sequence
atgc intronic sequence ATGC exonic sequenceATCTCCTCAGTGAAAACGAAGACTGGAATCTGAAACCTGGTGGCCGTTACTTCTTTACACGAAACATGTCCTGTTTGGTTGCTTTTGCTGTCGGAGAAAAgtgagtcttccgattcaattatgcttccatggtataagatttggtttggctttgataatgaatcctggaactagttcaagctttgataattgaagggttcttcacaaaaatcgttttttttttctttcttagattccttatttgttgggttcagggaacctacatttgttcctcattttgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G04710.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G04710.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os01g73680.1 (Oryza sativa), 5'ss of exon 2
ATCTCCTCAGTGAAAACGAAGACTGGAATCTGAAACCTGGTGGCCGTTACTTCTTTACACGAAACATGTCCTGTTTGGTTGCTTTTGCTGTCGGAGAAAAgtgagtcttccgattcaattatgcttccatggtataagatttggtttggctttgataatgaatcctggaactagttcaagctttgataattgaagggttcttcacaaaaatcgttttttttttctttcttagattccttatttgttgggttcagggaacctacatttgttcctcattttgtag
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CGCTGCTCAGTGAGAACGACGACTGGGACCTGCAGCCTGGTGGCCGCTACTTCTTCACGCGCAACATGTCCTGCTTGATTGCCTTTGCAGTAGGGGAAAAgtaagtcagc-gac---attggcttctgattatttaacttatcactaagaatctgcaacgaatg-tggtgttcaaataccatttgaaagtcaatgcctttgattt------------------------------------------------------------------------------
upper sequence: AT5G04710.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA20G32790.1 (Glycine max), 5'ss of exon 1
ATCTCCTCAGTGAAAACGAAGACTGGAATCTGAAACCTGGTGGCCGTTACTTCTTTACACGAAACATGTCCTGTTTGGTTGCTTTTGCTGTCGGAGAAAAgtgagtcttccgattcaattatgcttccatggtataagatttggtttggctttgataatgaatcctggaactagttcaagctttgataattgaagggttcttcacaaaaatcgttttttttttctttcttagattccttatttgttgggttcagggaacctacatttgttcctcattttgtag
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ACATGCTCGACGAGAACCACGACTGGCACCTCAAGCCCGGCGGACGCTACTTCTTCACCCGCAACATGTCCTGTTTGGTTGCTTTCGCCATCGGAGATAAgtcagttcacttctttcttcgc-cttctctcttctttgttccgttacggttttgtt--tgac-----ggggtcgtttttgcctag--------------------------------------------------------------------------------------------------
upper sequence: AT5G04710.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv13s0106g00700.t01 (Vitis vinifera), 5'ss of exon 3
ATCTCCTCAGTGAAAACGAAGACTGGAATCTGAAACCTGGTGGCCGTTACTTCTTTACACGAAACATGTCCTGTTTGGTTGCTTTTGCTGTCGGAGAAAAgtgagtcttccgattca-attatgcttccatggtataagatttggtttggctttgataatgaatc--ctggaactagttcaagctttgataattgaagggttcttcacaaaaatcgttttttttttctttcttagattccttatttgttgggttcagggaacctacatttgttcctcattttgtag
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AGTTGTTAAATGAGAATGATGAATGGGACCTAAGGCCTGGTGGCCGCTACTTATTCACGCGGAACATGTCTAGTTTGGTTGCCTTTGCCATTGGAGAAAAgtgagtgta--aattaacactttgaactctcagcacttgaggaggat---ctatgacactagatgtactgaagcaacctagagagcaaactttcaagagacccac---------------------------------------------------------------------------------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|124834013|gb|EH918452.1|EH918452EST: TTCTTTACACGAAACATGTCCTGTTTGGTTGCTTTTGCTGTCGGAGAAAA GTATGTGCCTGGTAATGGTTTTCATGCCATAGCTGCTCACACC
genomic: TTCTTTACACGAAACATGTCCTGTTTGGTTGCTTTTGCTGTCGGAGAAAAgtgagtcttc ... cattttgtagGTATGTGCCTGGTAATGGTTTTCATGCCATAGCTGCTCACACC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATCTCCTCAGTGAAAACGAAGACTGGAATCTGAAACCTGGTGGCCGTTACTTCTTTACACGAAACATGTCCTGTTTGGTTGCTTTTGCTGTCGGAGAAAAgtgagtcttccgattcaattatgcttccatggtataagatttggtttggctttgataatgaatcctggaactagttcaagctttgataattgaagggttcttcacaaaaatcgttttttttttctttcttagattccttatttgttgggttcagggaacctacatttgttcctcattttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA