Sequence
atgc intronic sequence ATGC exonic sequenceAGCATGCACCTTTCGGGATAACAGCCACTTGTCTTGATACATTTATAAAAAGTTGTGCGGGCTATTCTGTGATCACATATATACTTGGCATTGGAGACAGgtatggtgcaaaacatgatctcgttaaggtttttgagaatttttttcaatttgctgtaaattgtgatgatggcctgattttgatatgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G60490.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G60490.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: LOC_Os08g21590.2 (Oryza sativa), 5'ss of exon 14
AGCATGCACCTTTCGGGATAACAGCCACTTGTCTTGATACATTTATAAAAAGTTGTGCGGGCTATTCTGTGATCACATATATACTTGGCATTGGAGACAGgtatgg---tgcaaaacatgatctcgttaaggtttttgag---aatttttttcaatttg--ctgtaaat-tgtgatg-atggcctgattttgatatgtag
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AAGATGGCCCTTTTGGTATAACTGCCCAATGTTTGGAAACTTTTATAAAAAGTTGTGCTGGCTACAGTGTCATTACATACATACTGGGGATTGGAGACAGgttagcatttttgctacctagtatagttaagttgcatacatctaggtgttttaagcttgtgctctaagcatatcacacaatgcggcatctttttagttgc
upper sequence: AT1G60490.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GLYMA06G10090.1 (Glycine max), 5'ss of exon 14
AGCATGCACCTTTCGGGATAACAGCCACTTGTCTTGATACATTTATAAAAAGTTGTGCGGGCTATTCTGTGATCACATATATACTTGGCATTGGAGACAGgta----------tggtgcaaaacatgatctcgttaaggtttttgagaattttt-ttcaatttgctgtaaattgtg--atgatggcctgattttgatatgtag
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ACCATGGACCTTTTGGAATTACAGCCACCTGCCTTGAAACATTTATAAAAAGCTGTGCTGGCTACTCTGTTATAACATATATACTTGGTATCGGAGACAGgtgattgttgattttatttgtaacatgtcattttatatctaataaacaatagagactgggttcaccagaaactgccacatgctggccagaa---aacacagag
upper sequence: AT1G60490.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GLYMA04G10090.1 (Glycine max), 5'ss of exon 14
AGCATGCACCTTTCGGGATAACAGCCACTTGTCTTGATACATTTATAAAAAGTTGTGCGGGCTATTCTGTGATCACATATATACTTGGCATTGGAGACAGgta-----tggtgcaaaacatga--tctcgttaaggtttttgagaattttt----ttcaatttgctgtaaattgtg--atgatggcctgattttgatatgtag
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ACCATGGGCCTTTTGGAATTACAGCCACCTGCCTTGAAACATTTATAAAAAGCTGTGCTGGATACTCTGTTATAACATATATACTTGGTATCGGAGACAGgtgattgttgattttattcattacatgtcattttatatctaataaataactgagactgggttcaccagaaactgctacatgctggccagaaaat-acaggt--
upper sequence: AT1G60490.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: Vv01s0127g00430.t01 (Vitis vinifera), 5'ss of exon 14
AGCATGCACCTTTCGGGATAACAGCCACTTGTCTTGATACATTTATAAAAAGTTGTGCGGGCTATTCTGTGATCACATATATACTTGGCATTGGAGACAGgta--tggtgcaaaacatgatct-cgttaaggtttttgagaatttttttcaatttgctgtaaattgtgatgatggcctgatttt-----gatatgtag--------------------------------------------------------------
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AGCATGGGCCTTTTGGAATCACAGCCACCTGTCTTGAAACATTTATAAAAAGCTGTGCTGGCTACTCAGTTATTACATATATTCTGGGCATTGGAGACAGgtgactattgaatttgacaatgtacatcaagactatctacatattactgtaccttatttaaattagctagtgttttttaattttctgttgattcctggggtagatctgaatatgtcaaactgaagtatatttctgaatacaaaatcttcttggcttgtagMapped 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|116420811|gb|EG463403.1|EG463403EST: AGTTGTGCGGGCTATTCTGTGATCACATATATACTTGGCATTGGAGACAG ACACCTGGACAACCTCCTCCTTACAGATGATGGTCGTCTGTTCCACGTTGA
genomic: AGTTGTGCGGGCTATTCTGTGATCACATATATACTTGGCATTGGAGACAGgtatggtgca ... tgatatgtagACACCTGGACAACCTCCTCCTTACAGATGATGGTCGTCTGTTCCACGTTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGCATGCACCTTTCGGGATAACAGCCACTTGTCTTGATACATTTATAAAAAGTTGTGCGGGCTATTCTGTGATCACATATATACTTGGCATTGGAGACAGgtatggtgcaaaacatgatctcgttaaggtttttgagaatttttttcaatttgctgtaaattgtgatgatggcctgattttgatatgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA