Sequence
atgc intronic sequence ATGC exonic sequenceTCTCTGCTTCCAGATTATCAGCGACTCCTAAGTTCCATGCCTTCTCGCAGATTGAACACCTCAAAACTTCTAGAAAATGGCGgtaatcttcctgtcttgattgcaaattttgtaccttaaacaattcactgtttttcgcttctttacatgttctttttctctgtatatttgcttttgtccct...
Basic information
species | Arabidopsis thaliana |
transcript | AT2G40730.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G40730.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA18G47590.1 (Glycine max), 5'ss of exon 8
TCTCTGCTTCCAGATTATCAGCGACTCCTAAGTTCCATGCCTTCTCGCAGATTGAACACCTCAAAACTTCTAGAAAATGGCGgt-aatcttcctgtcttgattgcaaattttgtaccttaaacaattcactgtttttcgcttctttacatgttctttttctctgtatatttgcttttgtccct--
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TCTCTGCTTCCAGATTACCAACGACTATTGAGTTCCATGCCCTCTCGTAGATTAAATACATCAAAGCTTATAGAAAACAGCGgtgagtgctccttgatataatatagatggggatttttctgc--ttcatgatcaccagtaaacaagaaagaaaatttgcttta-gtattctatgtaactcattt
upper sequence: AT2G40730.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA09G38740.1 (Glycine max), 5'ss of exon 8
TCTCTGCTTCCAGATTATCAGCGACTCCTAAGTTCCATGCCTTCTCGCAGATTGAACACCTCAAAACTTCTAGAAAATGGCGgt-aatcttcctgtcttgattgcaaattttgtaccttaaacaattcactgtttttcgcttctttacatgttctttttctctgtatatttgcttttgtccct
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TCTCTGCTTCCAGATTACCAACGACTATTGAGTTCCATGCCCTCTCGTAGATTAAATACATCAAAGCTTATAGAAAACAGCGgtgagtgctccttgatatataatatagatggggatttttctgcttcatgatcacctgtaaacaagaaagtttgctttattattctatgtaactc-atctta
upper sequence: AT2G40730.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA20G36180.1 (Glycine max), 5'ss of exon 8
TCTCTGCTTCCAGATTATCAGCGACTCCTAAGTTCCATGCCTTCTCGCAGATTGAACACCTCAAAACTTCTAGAAAATGGCGgtaa--tcttcctgtcttgattgcaaattttgtaccttaaacaattcactgtttttcgcttctttacatgttctttttctctgtatatttgcttttgtccct
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TCTCTGCTTCCAGATTACCAGCGGCTACTGAGTTCTGTGCCCTCTCGTAGATTAAATACATCAAAGCTTATAGAAAACAGTGgtgagtgcttcttgatatatttttagttatcatttacagaaacattgttcacttagcattgttggagtttgctgctttgtttgaaggatt-catgtgtttt-
upper sequence: AT2G40730.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv13s0067g03110.t01 (Vitis vinifera), 5'ss of exon 8
TCTCTGCTTCCAGATTATCAGCGACTCCTAAGTTCCATGCCTTCTCGCAGATTGAACACCTCAAAACTTCTAGAAAATGGCGgtaa--tcttcctgtcttgattgcaaattttgtaccttaaacaattcactgtttttcgcttctttacatgttctttttctctgtatatttgcttttgtccct
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TCTCTACTTCCAGATTATCAGCGGCTCTTGAGTTCCATGCCTGCTCGCAGGTTGAACACATCGAAGCTTATAGAAAATAGTGgtgagttcttatgatttgtactactagtattgtagttaacagctgccatgaatttttgttcttaggaattcaatttgcagtcccatgtaaaatgagaaat--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|86065920|gb|DR361677.1|DR361677EST: TTCCATGCCTTCTCGCAGATTGAACACCTCAAAACTTCTAGAAAATGGCG AGTATTTCCAAAATAAGCTGGTGGACACCATACATTTTATGGATATTCTGA
genomic: TTCCATGCCTTCTCGCAGATTGAACACCTCAAAACTTCTAGAAAATGGCGgtaatcttcc ... gaattggcagAGTATTTCCAAAATAAGCTGGTGGACACCATACATTTTATGGATATTCTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTCTGCTTCCAGATTATCAGCGACTCCTAAGTTCCATGCCTTCTCGCAGATTGAACACCTCAAAACTTCTAGAAAATGGCGgtaatcttcctgtcttgattgcaaattttgtaccttaaacaattcactgtttttcgcttctttacatgttctttttctctgtatatttgcttttgtccct
- - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcgcttct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttttctc