Sequence
atgc intronic sequence ATGC exonic sequencegtaagctacatttgaactaccagtactagctttgacaagttgcaaatttttgtgagtttcgtatgacttatatttccgttttcattgtttgcatggagTTTCCGATAACCGCTATCCGGGAGATCAAAATTCTGAAGAAGCTGCATCATGAAAATGTCATCCATTTGAAAGAGATTGTTACTTCTCCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G64960.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G64960.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv00s0805g00020.t01 (Vitis vinifera), 3'ss of exon 1
-gtaagctacatttgaacta-ccagtactagctttgacaagttgcaaatttttgtgagtttcgtatgacttatatttccgttttcattgtttgcatggagTTTCCGATAACCGCTATCCGGGAGATCAAAATTCTGAAGAAGCTGCATCATGAAAATGTCATCCATTTGAAAGAGATTGTTACTTCTCCAG
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nnnnnnnnnngggaggtttagctacaagtagctgtaagcaggtacacataacaaggattccctctaataatttgttgcaatttttgctttgtttttgtagTTTCCTATAACTGCTATCCGGGAAATTAAAATTCTAAAGAAGCTACATCACGAAAATGTTCTAAAACTGAAAGAGATTGTAACGTCTCCAG
upper sequence: AT5G64960.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 2
------------------------------------------------------------------------------------------gtaagctacatttgaactaccagtactagctttgacaagttgcaaatttttgtgagtttcgtatgacttatatttccgttttcattgtttgcatggagTTTCCGATAACCGCTATCCGGGAGATCAAAATTCTGAAGAAGCTGCATCATGAAAATGTCATCCATTTGAAAGAGATTGTTACTTCTCCAG
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gtattattattattattattatttttctcccttatgtgtgtgtgttttctgattgtagtctgtcaaaaagttagttgaactatgtaacaggtgagggaggttt-agctacaag---tagctgtaagcaggtgcacataacaaggattccctctaataatttgttgcaatttttgctttgtttatgtagTTTCCTATAACTGCTATCCGGGAAATTAAAATTCTAAAGAAGCTACATCACGAAAATGTTCTAAAACTGAAAGAGATTGTAACGTCTCCAGMapped 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|47829487|gb|CK119171.1|CK119171EST: GTGAAATCGTGGCTCTGAAAAAGATCCGTATGGACAATGAAAGAGAAGGG TTTCCGATAACCGCTATCCGGGAGATCAAAATTCTGAAGAAGCTGCATCAT
genomic: GTGAAATCGTGGCTCTGAAAAAGATCCGTATGGACAATGAAAGAGAAGGGgtaagctaca ... ttgcatggagTTTCCGATAACCGCTATCCGGGAGATCAAAATTCTGAAGAAGCTGCATCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatttttgtgagtttcgtatgacttatatttccgttttcattgtttgcatggagTTTCCGATAACCGCTATCCGGGAGATCAAAATTCTGAAGAAGCTGCATCATGAAAATGTCATCCATTTGAAAGAGATTGTTACTTCTCCAG
tatgacttatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctacatttgaactaccagtactagctttgacaagttgcaaatttttgtgagtttcgtatgacttatatttccgttttcattgtttgcatggagTTTCCGATAACCGCTATCCGGGAGATCAAAATTCTGAAGAAGCTGCATCATGAAAATGTCATCCATTTGAAAGAGATTGTTACTTCTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA