Sequence
atgc intronic sequence ATGC exonic sequenceATACGCCAGCAGAGTTCTCATTTCTTGAGGGGGTTTCAGCAACTCATTCCGAAAGAATGGATCGACATGTTCAATGAACATGAGCTTCAGgtgccaattaagtgtataattatacttgctttgttagttgttccctcgaggagcatgaagagagaaattttacctttgtgggctttggttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G17205.1 |
intron # | 21 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G17205.3 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: LOC_Os05g06690.3 (Oryza sativa), 5'ss of exon 22
ATACGCCAGCAGAGTTCTCATTTCTTGAGGGGGTTTCAGCAACTCATTCCGAAAGAATGGATCGACATGTTCAATGAACATGAGCTTCAGgtgc---caattaagtgtataattatacttgctttgttagt----tgttccctcgaggagcatgaagagagaaattttacctttgtgggctttg-gttgcag
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ATCCGCGCCCAAAGCACACATTTTTTGAGAGGCTTTCAACAACTAATACCGAATGAATGGATTAACATGTTCAATGAACATGAATTCCAGgtactttcccttgcat-tatgattacagatagaaaaaaaatgctgtttttactccatatttttgcaaaataatatagtcctacagtggtcacaatgtctct-
upper sequence: AT3G17205.3 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GRMZM2G034622_T01 (Zea mays), 5'ss of exon 6
ATACGCCAGCAGAGTTCTCATTTCTTGAGGGGGTTTCAGCAACTCATTCCGAAAGAATGGATCGACATGTTCAATGAACATGAGCTTCAGgtgc-----caattaagtgtataattatacttgctttgttagttgttccctcgaggagcatgaagagagaaattttacctttgtgg--gctttggttgcag-
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ATCCGTGCACAAAGTACACACTTCTTGAGAGGTTTTCAGCAGCTTATACCAAAAGATTGGATTGATATGTTCAATGAACATGAAATTCAGgtacttcaacaattcagcttaccttt-tacc-actacatggctctttatctctagtgatattgtatggaatgtgtaatttttggggaagaaataatgccact
upper sequence: AT3G17205.3 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GLYMA07G36390.1 (Glycine max), 5'ss of exon 21
ATACGCCAGCAGAGTTCTCATTTCTTGAGGGGGTTTCAGCAACTCATTCCGAAAGAATGGATCGACATGTTCAATGAACATGAGCTTCAGgtgccaattaagtgtataattatacttgctttgttagttgttccctcgaggagcatgaagagagaaattttacctttg----tgggctttggttgcag-------
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ATACGCCAACAAAGTTCACATTTCTTGAGGGGATTTCAGCAACTTATTCAGAAGGATTGGATTGACATGTTTAATGAACATGAACTTCAGgtttttttcca----ataatcttatccgcttt-tcagtctcgaaacctatgttctcttttttttcaattgtattgttggttttgatatttgctcgtgtggtggtc
upper sequence: AT3G17205.3 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: GLYMA17G04180.1 (Glycine max), 5'ss of exon 21
ATACGCCAGCAGAGTTCTCATTTCTTGAGGGGGTTTCAGCAACTCATTCCGAAAGAATGGATCGACATGTTCAATGAACATGAGCTTCAGg----tgccaattaagtgtataattatacttgctttgttagttgttccctcgaggagcatgaagagagaaattttacctttgtgggctt--tggttgcag-
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ATACGCCAACAAAGTTCACATTTCTTGAGGGGATTTCAGCAACTTATGCAGAAGGATTGGATTGACATGTTTAATGAACATGAACTTCAGgtttttttctgataatcttatccacttttcggtcttgaaagtgatgctattctc-attttgtattgttggttttgatatttgctcgtgtggtggtcttaag
upper sequence: AT3G17205.3 (Arabidopsis thaliana), 5'ss of exon 21
lower sequence: Vv05s0077g00470.t01 (Vitis vinifera), 5'ss of exon 22
ATACGCCAGCAGAGTTCTCATTTCTTGAGGGGGTTTCAGCAACTCATTCCGAAAGAATGGATCGACATGTTCAATGAACATGAGCTTCAGgtgc------caattaag-tgtataattatacttgctttgttagttgttccctcgaggagcatgaagagagaaatt-ttacctttgtgggctttggttgcag
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ATACGTCAGCAAAGTACTCATTTCTTGAGGGGTTTTCAGCAACTTATACAAAGAGATTGGATTGAAATGTTTGATGAGCATGAACTTCAGgtactgtgttcagctatgctagataatgaaacaacataagttggac-ctatattggatggcacaatcactggtattattaaacttggttatataggaagag-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|164230922|gb|ES108814.1|ES108814EST: ATGAACATGAGCTTCAG GTTCTCATATCTGGTTCAGTTGATAGTTTGGATATAGACGACTTGCGAAAC
genomic: ATGAACATGAGCTTCAGgtgccaatta ... ttggttgcagGTTCTCATATCTGGTTCAGTTGATAGTTTGGATATAGACGACTTGCGAAAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATACGCCAGCAGAGTTCTCATTTCTTGAGGGGGTTTCAGCAACTCATTCCGAAAGAATGGATCGACATGTTCAATGAACATGAGCTTCAGgtgccaattaagtgtataattatacttgctttgttagttgttccctcgaggagcatgaagagagaaattttacctttgtgggctttggttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT