Sequence
atgc intronic sequence ATGC exonic sequenceAAATTTTTGAGGCAGCCCCACTTTATAGTGTGGGATAATGGTGACCTTGTTACTCATGAAGTTATGGGTGGATTAAAGAATGTATATGCTATTGGAGCAGgtaaaaactagtttatgtggttacattgtagagaacaacttagtagaagcaaataggtacatacagttttttttttcaaaaaaaatttagagtttagtgt...
Basic information
species | Glycine max |
transcript | GLYMA12G01380.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G01380.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os05g41590.1 (Oryza sativa), 5'ss of exon 2
AAATTTTTGAGGCAGCCCCACTTTATAGTGTGGGATAATGGTGACCTTGTTACTCATGAAGTTATGGGTGGATTAAAGAATGTATATGCTATTGGAGCAGgtaaaaactag-----------------tttatgtggttacattgtagagaacaacttagtagaagcaaataggta-catacagttttttttttcaaaaaaaatttagagtttagtgt
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AAATTTCTGAGGCAGCCTCATTTTATTGTGTGGGATAATAGTGATCTCATCACTCATGAAGTAATGGGCGGCTTAAAGAACATATATGCCATTGGTGCTGgtaagttccatggtctcatatctgacgttttatgtccatatcaccttgaaaatttttaactgggaaaataaaaccatcatgtggcttttcttgttgaagc------------------
upper sequence: GLYMA12G01380.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os01g58740.1 (Oryza sativa), 5'ss of exon 3
AAATTTTTGAGGCAGCCCCACTTTATAGTGTGGGATAATGGTGACCTTGTTACTCATGAAGTTATGGGTGGATTAAAGAATGTATATGCTATTGGAGCAGgtaaaaactagtttatgtggttacattgtagagaacaactta-gtagaagcaaataggtacatacagttttttttttcaaaaaaaatttagagtttagtgt--
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AAATTTTTGAGGCAGCCTCATTTTATTGTATGGGATAATAGTGATCTCATTACACATGAAGTCATGGGAGGTTTGAAAAATGTGTATGCCATTGGTGCCGgtaatttctatttcctct--cttgattgtttttgctatcttctgtaatcacggtagagcatatactgttgtgatatttagcatggggt-atgttggaatgcac
upper sequence: GLYMA12G01380.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G090747_T02 (Zea mays), 5'ss of exon 3
AAATTTTTGAGGCAGCCCCACTTTATAGTGTGGGATAATGGTGACCTTGTTACTCATGAAGTTATGGGTGGATTAAAGAATGTATATGCTATTGGAGCAGgtaaaaactagtttatgtggttacattgtagagaacaacttagtagaagcaaataggtacatacagttttttttttcaaaaaaaatttagagtttagtgt-
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AAGTTTTTGAGGCAGCCTCATTTTATTGTGTGGGATAACAGTGATCTCATCACTCATGAAGTCATGGGTGGCTTAAAAAATGTCTATGCTATTGGTGCTGgtaatttctatttgtctttttcactgtttcctgtttt-cttgattacactggagagctacatatatcattatattaagaataaaaagatgggctagaaacc
upper sequence: GLYMA12G01380.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G173195_T01 (Zea mays), 5'ss of exon 2
AAATTTTTGAGGCAGCCCCACTTTATAGTGTGGGATAATGGTGACCTTGTTACTCATGAAGTTATGGGTGGATTAAAGAATGTATATGCTATTGGAGCAGgtaaaaactagtttatgtggttacattgtagagaacaacttagtaga---agcaaataggtacatacagttttttttttcaaaaaaaatttagagtttagtgt-
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AATTTCTTGAGGCAACCTCATTTTATTGTATGGGACAATAGTGATCTCATTACTCATGAAGTCATGGGCGGCTTAAAAAACGTATATGCCATTGGGGCCGgtaag--ttatttgatccagaaaaatgg--aatttccatttgctctcttttcccagttcttatgagatacttggtcaatcattgcatatttgatgtttcatcaa
upper sequence: GLYMA12G01380.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv13s0158g00340.t01 (Vitis vinifera), 5'ss of exon 2
AAATTTTTGAGGCAGCCCCACTTTATAGTGTGGGATAATGGTGACCTTGTTACTCATGAAGTTATGGGTGGATTAAAGAATGTATATGCTATTGGAGCAGgtaaaaactagtttatgtggttacattgtagagaacaacttagtagaagcaaataggtacatacagttttttttttcaaaaaaaa--tttagagtttagtgt--
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AAGTTTTTAAGACAGCCTCATTTTATAGTGTGGGATAATGGTGACCTTATAACCCATGAAGTTATGGGTGGTTTAAAGAATGCCTATGCCATTGGAGCTGgtaaga--cagtttcccttagtgaattaggacttgggcatta--aataacacacagtgatatattattgtacgatatgataaatccctttatatatatacgtgtMapped 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|58014578|gb|CX701320.1|CX701320EST: TACTCATGAAGTTATGGGTGGATTAAAGAATGTATATGCTATTGGAGCAG GAATGGTAGCCGCTTTAACAAATGAGAGTGCCACCAGCAAGTCAGTGTACT
genomic: TACTCATGAAGTTATGGGTGGATTAAAGAATGTATATGCTATTGGAGCAGgtaaaaacta ... aatttaacagGAATGGTAGCCGCTTTAACAAATGAGAGTGCCACCAGCAAGTCAGTGTACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAATTTTTGAGGCAGCCCCACTTTATAGTGTGGGATAATGGTGACCTTGTTACTCATGAAGTTATGGGTGGATTAAAGAATGTATATGCTATTGGAGCAGgtaaaaactagtttatgtggttacattgtagagaacaacttagtagaagcaaataggtacatacagttttttttttcaaaaaaaatttagagtttagtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaaaa