Sequence
atgc intronic sequence ATGC exonic sequenceTCCTTCCTTCCACAACTACAGGATCTGGTCTTTTCTTGGACTCTTGATGACCACTTACACTGCTTGGTACCTCACCATTGCCTCTATCCTCCATGGACAGgtaactagttctttctttaatctaattagtttcaacgagttaaagattagaatagctggtgatgttgtggcttaaggggactcaaaaacatcaacaaagt...
Basic information
species | Arabidopsis thaliana |
transcript | AT2G21050.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os03g14080.1 (Oryza sativa), 5'ss of exon 4
TCCTTCCTTCCACAACTACAGGATCTGGTCTTTTCTTGGACTCTTGATGACCACTTACACTGCTTGGTACCTCACCATTGCCTCTATCCTCCATGGACAGgta-------actagttctttctttaatctaat-tagtttcaacgagttaaagattagaatagct-ggtg-atgttgtggcttaaggggactcaaaaacatcaacaaagt--------------------------
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CCCGTCGTTCCACAACTACCGGATCTGGTCATTCCTCGGCCTCGTCATGACCACCTACACGGCCTGGTACCTCGCCGTCGCCTCCCTCATCCATGGCCAGgtagtacaacacaaaagcaccatctgttagcatgcagcatgcttgcatttctcgtctgaatagcgaggcgcatgcctgaacattattacattgcgttgtgctgaaaaaacacttgtgttttttgtatgaatatcag
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G045057_T02 (Zea mays), 5'ss of exon 4
TCCTTCCTTCCACAACTACAGGATCTGGTCTTTTCTTGGACTCTTGATGACCACTTACACTGCTTGGTACCTCACCATTGCCTCTATCCTCCATGGACAGgtaacta---gttctttctttaatctaat----tagt---ttcaacg--agttaaagattagaatagctggtgatgt-tgtggcttaaggggactcaaaaacatcaacaa-agt-------
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CCCCTCCTTCCACAACTACCGGATCTGGTCCTTCCTCGGCCTCCTCATGACCACCTACACCGCATGGTACCTCACCATTGCCGCCATCGCACACGGTCAGgtatatatgcgctgagcgtgtgatatgatgcactagtcgattgatcgcctgcttgcgctatgtccagcagatcgtgtatatggccgtaccaaacattaattgatggacgacaatattatag
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G149481_T02 (Zea mays), 5'ss of exon 4
TCCTTCCTTCCACAACTACAGGATCTGGTCTTTTCTTGGACTCTTGATGACCACTTACACTGCTTGGTACCTCACCATTGCCTCTATCCTCCATGGACAGgtaactagttctttctttaa--tctaattagt-ttcaacgagttaaagattagaatagctggtgatgttgtggcttaaggggactcaaaaacatcaacaaagt------------
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CCCGTCGTTCCACAACTACCGGATCTGGTCGTTCCTGGGCCTCGTCATGACCACCTACACGGCGTGGTACCTCGCCGTCGCGTCCCTCATCCATGGCCAGgtacgcaagcgtagcgttgaagcataatatgcattctgtgggcctgtggcctg--tggcctgtgg-gtgaccggccgagacgatgtgtgtgcttctgctgctctacttgttgcag
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA04G00640.1 (Glycine max), 5'ss of exon 4
TCCTTCCTTCCACAACTACAGGATCTGGTCTTTTCTTGGACTCTTGATGACCACTTACACTGCTTGGTACCTCACCATTGCCTCTATCCTCCATGGACAGgtaac--tagttctttctttaatctaattagtttcaacga--gttaaagattagaatagctggtgatgttgtggcttaaggggactcaaaaacatcaacaaagt--------------------------
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CCCTTCCTTCCACAACTACAGAATCTGGTCCTTTCTTGGCCTCCTCATGACCACTTACACTGCTTGGTACCTCACAGTTGCCTCTCTCCTTCACGGCCAGgtaataataatttagatttgcaaataaataatcatatatattattcctactgtgatctatgaatcattatgtttcttagtggctactataataatatgcgatcttgatgttactatatatgattgtgtag
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA06G00690.1 (Glycine max), 5'ss of exon 4
TCCTTCCTTCCACAACTACAGGATCTGGTCTTTTCTTGGACTCTTGATGACCACTTACACTGCTTGGTACCTCACCATTGCCTCTATCCTCCATGGACAGgtaac--tagttctttctttaatctaattagtttcaacgagttaaagattagaatagctggtgatgttgtggcttaaggggactcaaaaacatcaacaaagt-------------------------------
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CCCTTCCTTCCACAACTACAGAATCTGGTCCTTTCTTGGCCTCCTCATGACCACTTACACTGCTTGGTACCTCACTGTTGCCTCTCTCCTTCACGGCCAGgtaataacaatttagatttgcaaataaataaatgcatatatatacatatatatatatatatatatatgaattattatatttattagtggctactataataatatgcgatcttgatgttactatgattgtgtag
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA11G11310.1 (Glycine max), 5'ss of exon 4
TCCTTCCTTCCACAACTACAGGATCTGGTCTTTTCTTGGACTCTTGATGACCACTTACACTGCTTGGTACCTCACCATTGCCTCTATCCTCCATGGACAGgtaactagttctttctttaatctaattagtttcaacgagttaaagattagaatagctggtgat--gttgtggcttaaggggactcaaaaacatcaacaaagt----------------------------------
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TCCTTCCTTTCACAACTACAGAATCTGGTCCTTTTTGGGCCTCCTTATGACCACTTACACTGCTTGGTATCTCACAGTTGCCTCTCTCCTTCACGGTCAGgtaacaataataaatttacaaacagatacgtactactacattattattattattactgatattcaattattaattatatgcaattgtaattaatttagtagtaatgctatgcttttccgattgttattatgcttag
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA12G03490.1 (Glycine max), 5'ss of exon 4
TCCTTCCTTCCACAACTACAGGATCTGGTCTTTTCTTGGACTCTTGATGACCACTTACACTGCTTGGTACCTCACCATTGCCTCTATCCTCCATGGACAGgtaactagttctttctttaatctaattagtttcaacgagttaaagattagaatagctggtgatgttgtggcttaaggggactcaaa--aacatcaacaaagt-------------------------------------
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TCCTTCCTTTCACAACTACAGAATCTGGTCCTTTTTGGGCCTCCTCATGACCACTTACACTGCCTGGTATCTCACAGTTGCCTCTCTCCTTCACGGTCAGgtgacaacaatattcataaattaagtta----caaataatttattattattattatttcatacattaaattattaatgatatgaaactgtcattaatatagtagtaatgctatgtttttccaattgttattatgcttag
upper sequence: AT2G21050.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv03s0038g02140.t01 (Vitis vinifera), 5'ss of exon 4
TCCTTCCTTCCACAACTACAGGATCTGGTCTTTTCTTGGACTCTTGATGACCACTTACACTGCTTGGTACCTCACCATTGCCTCTATCCTCCATGGACAGgtaactagttctttctttaatctaattagtt--tcaacgagttaaagattagaat-agctggtgatgttgtggcttaaggggact-caaaaacatcaacaaagt-
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TCCTTCATTCCACAACTACAGAATCTGGTCCTTCTTGGGCTTGATCATGACCACTTACACTGCCTGGTACCTCACTGTTGCATCCCTCCTCCATGGCCAGgta-ctatacatatatctcattcaaccaaatatccaaaacatatgatattaaaattagtaaatgattttatttatttatttatttatttatttgttaatgggcagMapped 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|125037067|gb|EL109336.1|EL109336EST: CCACTTACACTGCTTGGTACCTCACCATTGCCTCTATCCTCCATGGACAG GTAGAAGGAGTGAAGCATTCAGGACCAAGCAAG
genomic: CCACTTACACTGCTTGGTACCTCACCATTGCCTCTATCCTCCATGGACAGgtaactagtt ... ataaaaatagGTAGAAGGAGTGAAGCATTCAGGACCAAGCAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCTTCCTTCCACAACTACAGGATCTGGTCTTTTCTTGGACTCTTGATGACCACTTACACTGCTTGGTACCTCACCATTGCCTCTATCCTCCATGGACAGgtaactagttctttctttaatctaattagtttcaacgagttaaagattagaatagctggtgatgttgtggcttaaggggactcaaaaacatcaacaaagt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctttctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caacaaag