Sequence
atgc intronic sequence ATGC exonic sequence...aagaaagtgcattttagctgcctttgtagcatcacggagggtcttgttataataattcatcttcatactctgtgattgatatcggtaagctttgttgtagAAAAGATGGGAGACTCTCCAGCAGCAGGGGAGGAGGATATTTGTTGTTGGTGATCTTAATATTGCTCCTGCTGCTATAGATCGCTGTGATGCTGGACCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g03440.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G103458_T01 (Zea mays), 3'ss of exon 4
--aagaaagtgcattttagctgcctttgtagcatc----acggagggtcttgttataataattcatcttc---atactctgtgattg-atatcggtaagctt--------tgttgt----------------agAAAAGATGGGAGACTCTCCAGCAGCAGGGGAGGAGGATATTTGTTGTTGGTGATCTTAATATTGCTCCTGCTGCTATAGATCGCTGTGATGCTGGACCAG
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gtacttgagtgtgtctctgctgcctaataagtatctttcatggagaatatttcaacaaacttctatctttccaatgcttattgattatatatatttatgcttcttgtacttgtttttttcccaataccccttagAAAAGATGGGAACGTCTATTGGCTCTTGGAAAGAGAGTTTTTGTTGTTGGTGATTTGAATATTGCTCCTGCTTCTATAGACAGGTGTGACGCGGCACCTG
upper sequence: Vv04s0023g03440.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G05430.1 (Glycine max), 3'ss of exon 4
aagaaagtgcattttagctgcctttgtagcatcacggagggtcttg--ttataataattcatcttcatactctgtgattgatatcggtaagctttgttgtagAAAAGATGGGAGACTCTCCAGCAGCAGGGGAGGAGGATATTTGTTGTTGGTGATCTTAATATTGCTCCTGCTGCTATAGATCGCTGTGATGCTGGACCAG
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--cagtgctcatttttttttactctgttttcttgtatagagctgaaaattttcttttttcttttgttttctgtttgattgatgttgatagtctctttaatagAAAAGATGGGAGTCTCTCCTGCATCAAGGAAGGAGAATATTTGTTGTTGGTGATCTCAATATTGCACCATTTGCAATTGATCGATGTGATGCCGGACCTG
upper sequence: Vv04s0023g03440.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G36050.2 (Arabidopsis thaliana), 3'ss of exon 4
aagaaagtgcattttagctgcctttgta-gcatcacggagggtcttgttataataattcatcttcatactctgtgattgatatcggtaagctttgttgtagAAAAGATGGGAGACTCTCCAGCAGCAGGGGAGGAGGATATTTGTTGTTGGTGATCTTAATATTGCTCCTGCTGCTATAGATCGCTGTGATGCTGGACCAG
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------gta-agtttatcggtttctgaatgtatcgatgagatgctt-------cggcttctaatgatact-tggattaaatgttttttagttttcttgtagAGAAGATGGGAGTGTCTTCTGCGTCAAGGAAGGAGGGTATTTGTTGTTGGGGATCTCAACATTGCTCCTTTTGCTATGGATCGATGTGAAGCTGGGCCTG
upper sequence: Vv04s0023g03440.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G36050.1 (Arabidopsis thaliana), 3'ss of exon 3
aagaaagtgcattttagctgcctttgta-gcatcacggagggtcttgttataataattcatcttcatactctgtgattgatatcggtaagctttgttgtagAAAAGATGGGAGACTCTCCAGCAGCAGGGGAGGAGGATATTTGTTGTTGGTGATCTTAATATTGCTCCTGCTGCTATAGATCGCTGTGATGCTGGACCAG-----
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------gta-agtttatcggtttctgaatgtatcgatgagatgctt-------cggcttctaatgatact-tggattaaatgttttttagttttcttgtagagaagATGGGAGTGTCTTCTGCGTCAAGGAAGGAGGGTATTTGTTGTTGGGGATCTCAACATTGCTCCTTTTGCTATGGATCGATGTGAAGCTGGGCCTGATTTTMapped 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|161712080|gb|FC061452.1|FC061452EST: AGGATACAGAAAGGATTCAGTTTAAGCACACTTTTTTCCAGATATTACAG A-----TGGGAGACTCTCCAGCAGCAGGGGAGGAGGATATTTGTTGTTGGT
genomic: AGGATACAGAAAGGATTCAGTTTAAGCACACTTTTTTCCAGATATTACAGgtagcctaat ... tttgttgtagAAAAGATGGGAGACTCTCCAGCAGCAGGGGAGGAGGATATTTGTTGTTGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttataataattcatcttcatactctgtgattgatatcggtaagctttgttgtagAAAAGATGGGAGACTCTCCAGCAGCAGGGGAGGAGGATATTTGTTGTTGGTGATCTTAATATTGCTCCTGCTGCTATAGATCGCTGTGATGCTGGACCAG
gattgat putative branch site (score: 4)
ctttgtt putative PPT
aataattcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagaaagtgcattttagctgcctttgtagcatcacggagggtcttgttataataattcatcttcatactctgtgattgatatcggtaagctttgttgtagAAAAGATGGGAGACTCTCCAGCAGCAGGGGAGGAGGATATTTGTTGTTGGTGATCTTAATATTGCTCCTGCTGCTATAGATCGCTGTGATGCTGGACCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
aagaaag
- - - - - - - - gctgcct
- - - - - - - - - - - - - - gcatcac