Sequence
atgc intronic sequence ATGC exonic sequenceGTTTGACAAGGAGCTCAACAAAGAAGTTGCTATCAAAGTGATTGATTTGGAAGAATCgtaagtatattcttttcaacaatgtcaaaatacaaagatctgcaggattgtttgtatttatttggtacatttactgataataacagggtatctgaaaata...
Basic information
species | Glycine max |
transcript | GLYMA12G27300.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G27300.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G027756_T01 (Zea mays), 5'ss of exon 2
GTTTGACAAGGAGCTCAACAAAGAAGTTGCTATCAAAGTGATTGATTTGGAAGAATCgtaagtatatt-----cttttcaacaatgtcaaaatacaaagatctgcaggattgtttgtatttatttggtacatttactgataataacagggtatctgaaaata-
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GTTTGACAAGGAACTGAATAAAGAGGTTGCTATAAAAGTCATTGATTTGGAAGAAGCgtgagtcccttatgaattttaccacaacttcttatttttaacatattagttgttgttttcttttgttttgcactgtcgctaattttccc------tcggaaaacac
upper sequence: GLYMA12G27300.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G53165.2 (Arabidopsis thaliana), 5'ss of exon 3
GTTTGACAAGGAGCTCAACAAAGAAGTTGCTATCAAAGTGATTGATTTGGAAGAATCgtaagtatattcttttcaacaatgtcaaaatacaa-agatctgcaggatt-gtttgtatttatttggta-catttactgataataacagggtatctgaaaata
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GTTTGATACGGAGCTTAACAAAGACGTTGCCATTAAAGTTATTGATCTGGAAGAATCgtaagtatttgtatttttatagtcttatgtagtatcaaatatgtagtctccacttaaaatttttggatagtatttcgtttgctctgtaattaaattgaac---
upper sequence: GLYMA12G27300.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G15220.1 (Arabidopsis thaliana), 5'ss of exon 3
GTTTGACAAGGAGCTCAACAAAGAAGTTGCTATCAAAGTGATTGATTTGGAAGAATCgtaagtatattcttttcaacaatgtcaaaatacaaagatctgcaggattgtttgtatttatttggtacatttactgataataacagggtatctgaaaata-
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GTTTGATAAGGACCTCAATAAAGAAGTTGCCATTAAAGTAATCGACCTGGAAGAATCgtgagtatattttttattttagtattttctcatcat-atatgcaattctcctcttaagattttgagttgtataacgtttatcgtcttataagttgagtaac
upper sequence: GLYMA12G27300.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv19s0014g02310.t01 (Vitis vinifera), 5'ss of exon 3
GTTTGACAAGGAGCTCAACAAAGAAGTTGCTATCAAAGTGATTGATTTGGAAGAATCgtaagtatattcttttcaac----aatgtcaaaatacaaagatctgcaggattgtttgtat-----ttatttggtacatttactgataataacagggtatctgaaaata
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GTTTGATAAAGAGCTTAACAAAGATGTTGCTATTAAAGTAATTGATTTGGAAGAAGCgtgagtatctagtttgatacttctgtttttagtatcttgttctctgttcattgatttagatgcttgctcttctatgaacttcttgtttatt-cagggtttt--------
upper sequence: GLYMA12G27300.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S98_82V6.1 (Physcomitrella patens), 5'ss of exon 2
GTTTGACAAGGAGCTCAACAAAGAAGTTGCTATCAAAGTGATTGATTTGGAAGAATCgtaagtatattcttttcaacaatgtcaaaatacaaagatctgcagg-attgtttgtatttatttggtacatttactgataa--taacagggtatctgaaaata--------------------------------------------------------------------------------------
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ATTTGACAAGGAGTTAAACAAAGAAGTAGCAATTAAAGTCATTGACTTGGAGGAAGCgtaagtga---cgtcttaactctg--aatttattttctgttgcacgtgtctttttcaaatgctacctgtgctagccgattggtttgtgaggtaatttggaaaactatttctttctccaaagaagaaggaaatgcggttgtcaatgaagtctgacttttggtctatgctgtgaaattttcctgttatcag
upper sequence: GLYMA12G27300.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ15774 (Selaginella moellendorffii), 5'ss of exon 2
GTTTGACAAGGAGCTCAACAAAGAAGTTGCTATCAAAGTGATTGATTTGGAAGAATCgtaagtatattcttttcaacaatgtcaaaatacaaagatctgcaggattgtt-tgtatttatttggtac-atttactgataataacagggtatctgaaaata
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CTTTGACAAGGAGCTCAACAAGGAGGTTGCTATCAAAGTCATTGATCTCGAAGAAGCgtaagttctttcgttctttcatcatctttttttttcctctttcgatcctcctctttacttattttgtactatttcctgatcgcag-----------------
upper sequence: GLYMA12G27300.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ32910 (Selaginella moellendorffii), 5'ss of exon 2
GTTTGACAAGGAGCTCAACAAAGAAGTTGCTATCAAAGTGATTGATTTGGAAGAATCgtaagtatattc-----ttttcaacaatgtcaaaatacaaagatctgcaggattgtttgtatttatttggtac-atttactgataataacagggtatctgaaaata
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CTTTGACAAGGAGCTCAACAAGGAGGTTGCTATCAAAGTCATTGATCTCGAAGAAGCgtaagttctttcgccttctttcttccatctttttttttcctctttcg-atcctcctctttacttattttgtactatttcctgatcgcag-----------------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|19270719|gb|BM886975.1|BM886975EST: AAGGAGCTCAACAAAGAAGTTGCTATCAAAGTGATTGATTTGGAAGAATC AGAGGATGAAATTGAGGACATTCAGAAG
genomic: AAGGAGCTCAACAAAGAAGTTGCTATCAAAGTGATTGATTTGGAAGAATCgtaagtatat ... ctgtctgcagAGAGGATGAAATTGAGGACATTCAGAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTTGACAAGGAGCTCAACAAAGAAGTTGCTATCAAAGTGATTGATTTGGAAGAATCgtaagtatattcttttcaacaatgtcaaaatacaaagatctgcaggattgtttgtatttatttggtacatttactgataataacagggtatctgaaaata
- - - AAGGAG
- - - - GGAGCT
- - - - - AGCTCA
- - - - - - - - - AAAGAA
- - - - - - - - - - AAGAAG
- - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - GGAAGA