Sequence
atgc intronic sequence ATGC exonic sequenceCCTCGAAAGGCAGGGCCAAGGTCAGGTTGTAACTTGCTCTGGAGCTTACAAGGATGGTTCTCTTCGTGTCGTTCGTAATGGAATAGGGATTAATGAACAGgtcagctccccttcctctacctcagtgtggaatatttgcacccaagacacattcaaaaggaatggaaattggaaaaataaatctttatattaatgacaaactccttacaaaatattaatttttttatgcatgtatttgatctag
Basic information
species | Glycine max |
transcript | GLYMA08G13680.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os05g51480.1 (Oryza sativa), 5'ss of exon 12
CCTCGAAAGGCAGGGCCAAGGTCAGGTTGTAACTTGCTCTGGAGCTTACAAGGATGGTTCTCTTCGTGTCGTTCGTAATGGAATAGGGATTAATGAACAGgtcagctccccttcctctacctcagtgtggaatatttgcacccaagacacattcaaaaggaatggaaattggaaaaataaatctttatattaatgacaaactccttacaaaatattaatttttttatgcatgtatttgatctag
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CCTTGACAGGCAGGGTCAGGGTCAGGTTGTCACTTGTTCAGGAGCATTTAAAGATGGTTCCCTTCGGGTGGTTCGGAATGGGATAGGTATCAATGAGCAGgt-attgaattaagatctatccaatattgtccaattttagttctgcataaagttgagctatattatctcttatcatgtaattag------------------------------------------------------------
upper sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G402002_T01 (Zea mays), 5'ss of exon 12
CCTCGAAAGGCAGGGCCAAGGTCAGGTTGTAACTTGCTCTGGAGCTTACAAGGATGGTTCTCTTCGTGTCGTTCGTAATGGAATAGGGATTAATGAACAGgtcagctccccttcctctacctcagtgtggaatatttgcacccaagacacattcaaaaggaatggaaattggaaaaataaatctttatattaat-gacaaactccttacaaaatattaatttttttatgcatgtatttgatctag
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CCTTGATAGGCAGGGTCAAGGTCAGGTGGTCACTTGTTCTGGGGCGTTTAAAGATGGTTCCCTTCGGGTGGTTCGTAATGGTATAGGGATTAATGAGCAGgta----------tttttatggtagttt--attattgcca--------actttttaatgtggagaagttttgagttatttccccctctcctgcttgattag--------------------------------------------
upper sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 12
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 5'ss of exon 12
CCTCGAAAGGCAGGGCCAAGGTCAGGTTGTAACTTGCTCTGGAGCTTACAAGGATGGTTCTCTTCGTGTCGTTCGTAATGGAATAGGGATTAATGAACAGgtcagctccccttcctctacctcagtgtggaatatttgcacccaagacacattcaaaaggaatggaaattggaaaaataaatctttatattaatgacaaactccttacaaaatattaatttttttatgcatgtatttgatctag
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CCTTGAGAGACAGGGGCAAGGTCAGGTTGTAACTTGCTCTGGAGCATACAAGGATGGTTCTCTTCGCATAGTTCGCAATGGGATAGGAATAAATGAACAGgtttggtgtatattaggattgtcaatttgtctcagtgtcatgtaagcaatattctcatctgatgtaatctaataaaactctgctgtatattgcag-------------------------------------------------
upper sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 12
lower sequence: AT4G05420.2 (Arabidopsis thaliana), 5'ss of exon 11
CCTCGAAAGGCAGGGCCAAGGTCAGGTTGTAACTTGCTCTGGAGCTTACAAGGATGGTTCTCTTCGTGTCGTTCGTAATGGAATAGGGATTAATGAACAGgtcagctccccttcctctacctcagtgtggaatatttgcacccaagacacattcaaaaggaatggaaattggaaaaataaatctttatattaatgacaaactccttacaaaatattaatttttttatgcatgtatttgatctag
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CCTCGAGAGACAGGGGCAAGGTCAGGTTGTAACTTGTTCTGGAGCATTTAAGGATGGTTCCCTCCGCGTAGTTCGCAATGGAATAGGAATCAATGAACAGgtttgatttatgcgcgaaatctcattgt------cttgtatgcacaattttctcatatggtttctatatcttaaaact---ccgctctattacag-------------------------------------------------
upper sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 12
CCTCGAAAGGCAGGGCCAAGGTCAGGTTGTAACTTGCTCTGGAGCTTACAAGGATGGTTCTCTTCGTGTCGTTCGTAATGGAATAGGGATTAATGAACAGgtcagctccccttcctctacctcagtgtggaatatttgcacccaagaca--cattcaaaaggaatggaaattggaaaaataaatctttatat-taatgacaaactccttacaaaatattaatttttttatgcatgtatttgatctag
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CCTGGAGAGGCAAGGCCAAGGTCAGGTTGTAACTTGCTCAGGGGCTTATAAAGATGGTTCTCTTCGCATTGTTCGAAATGGAATAGGAATCAATGAACAGgtctggcttatttcaaccattttcttattgatctctagaatttgactttgccatttataagttcttctaaacttgcttattaatgtgcatatgccatcacatag-------------------------------------------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|7924079|gb|AW830087.1|AW830087EST: AGGATGGTTCTCTTCGTGTCGTTCGTAATGGAATAGGGATTAATGAACAG GCATCGGTAGAACTTCAAGGTATCAAAGGAATGTGGTCACTGAGATCCTCA
genomic: AGGATGGTTCTCTTCGTGTCGTTCGTAATGGAATAGGGATTAATGAACAGgtcagctccc ... tttgatctagGCATCGGTAGAACTTCAAGGTATCAAAGGAATGTGGTCACTGAGATCCTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCTCGAAAGGCAGGGCCAAGGTCAGGTTGTAACTTGCTCTGGAGCTTACAAGGATGGTTCTCTTCGTGTCGTTCGTAATGGAATAGGGATTAATGAACAGgtcagctccccttcctctacctcagtgtggaatatttgcacccaagacacattcaaaaggaatggaaattggaaaaataaatctttatattaatgacaaactccttacaaaatattaatttttttatgcatgtatttgatctag
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