Sequence
atgc intronic sequence ATGC exonic sequenceGATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATATCCACCTTGCCGACTATGAAGgttctccttctcttctgagatagttaatgttcctcattttctttcataagcgcaagtagcgaatgcttagaagtaggactgaatagttcatgagtttaga...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G19490.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G19490.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os09g02214.1 (Oryza sativa), 5'ss of exon 6
GATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATATCCACCTTGCCGACTATGAAGgttctccttctcttctgagatagttaatgttcctcattttctttcataagcgcaag-tagcgaatgcttagaagtaggactgaatagttcatgagtttaga---
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GATATCTGCAAATGCTGGGGGTGCATGGACACCAATTGGTGATGTGACGACCACTATGTTGTGGATTCATGGTCAGATTACAACGTTGAACACAATGCAGgtcagctttatagtgttttattat--gtgtttatataattgtttcatggctgtgaggcctctaaaacatac--gtcaagttttttggattataatgttgcatta
upper sequence: AT3G19490.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G053927_T02 (Zea mays), 5'ss of exon 6
GATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATATCCACCTTGCCGACTATGAAGgttctccttc----tcttctgagatagttaatgttcctcattttctttcataagcgcaagtagcgaatgcttagaagtaggactgaatagttcatgagtttaga
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AATAGCAGCGAATGCTGGCGGTGCATGGACACCAATTGGTGATGTGACAACCACTATGTTGTGGATTCATGGTCAGATTACAACATTGAAAATAATGCAGgttagcttttgtaatttttgcttgttttccgcgatatgcttatgcgaacatttccttgtgtcttgtgctctttgaattgttttggaaattttaattaact----
upper sequence: AT3G19490.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA10G40920.1 (Glycine max), 5'ss of exon 6
GATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATATCCACCTTGCCGACTATGAAGgttctccttctcttctgagatagtta--atgttcctcattttctttcataagcgcaagtagcgaatgcttagaagtaggactgaatagttca---tgagtttaga--------------------------------------------------------------------------------------
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AATAGCAGCAAATGCGGGGGGTGCATGGACTCCTATTGGTGATGTTACAACTACTATGCTGTGGATACATGGGCAAATATCTACAGTTCAAACAGTGAAGgttatctgttggttggaaatttgttcctgtgtgatttgtttgtttgaatcgccctaaattaagatttctcctttgtgaaagtctctctgttaaactgatctttgatgcatgaagattgaagaacacttggattcaactcagtgcaatgcagaatgaacaagtatccataattgcattttctttacttatag
upper sequence: AT3G19490.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA20G26550.1 (Glycine max), 5'ss of exon 4
GATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATATCCACCTTGCCGACTATGAAGgttctccttctcttctgagatagttaatgttcctcattttctttcataagcgcaagtagcgaatgcttagaagta-ggactgaatagttcat-gagtttaga---
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AATAGCAGCAAATGCTGGTGGTGCATGGAGTCCTATTGGTGCTGTTACCACTACTATGCTGTGGATAAATGGCCAAGTATCTGCAGTGCAAACAATGAAGgttatc----tgttggaaaattcttcctgtttcatacatctgtttg-gatcatgtgaaaagtttgtgtggaactacataatgaagcactagtagcatcctgagat
upper sequence: AT3G19490.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv03s0180g00120.t01 (Vitis vinifera), 5'ss of exon 6
GATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATATCCACCTTGCCGACTATGAAGgttctccttctcttctgagatagttaatgttcctc-attttctttcataagcgcaagtagcgaatgcttagaagtaggactgaatagttcatgagtttaga
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GATAGCCGCAAATGCTGGTGGTGCTTGGACTCCCATTGGTGATGTTACCACTACTATGCTGTGGATTCATGGTCAGATATCCACATTGCAGACAATGAAGgttcttttattttgtccatgcttccattgtacagctattcttttacagggaattgattgaaaagatattttttctagta-tatatagtttgaacttatggaMapped 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|125251651|gb|EL265736.1|EL265736EST: CGACTATGAAG GACCTTTTTCTACCTTCGGTTGTGTCTCTTGCTGTTCCACTTGCCCTCATG
genomic: CGACTATGAAGgttctccttc ... ttcctttcagGACCTTTTTCTACCTTCGGTTGTGTCTCTTGCTGTTCCACTAGCCCTCATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATAGCAGCAAATGCAGGAGGAGCATGGACTCCAATTGGTGATGTTACTACAACTATGTTATGGATTCATGGTCAGATATCCACCTTGCCGACTATGAAGgttctccttctcttctgagatagttaatgttcctcattttctttcataagcgcaagtagcgaatgcttagaagtaggactgaatagttcatgagtttaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttctttc