Sequence
atgc intronic sequence ATGC exonic sequenceGTTCATGCATGAAAGACTCTGTACTCATGCTGAATCAGTTGCTTTCTTTGGAGGTGGAGCTCGAGAAAAAGCTgtgagcatcccatctaaacaatatttaatatcttttctttaagggtgtttttattttagaaggtgcaaactttagaatgaaaatcacttcacacttgctt...
Basic information
species | Glycine max |
transcript | GLYMA11G38160.1 |
intron # | 19 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G38160.1 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os05g01700.1 (Oryza sativa), 5'ss of exon 15
GTTCATGCATGAAAGACTCTGTACTCATGCTGAATCAGTTGCTTTCTTTGGAGGTGGAGCTCGAGAAAAAGCTgtgagcatcccatctaaacaatatttaatatct----tttctttaagggtgttt-ttattttagaaggtgcaaactttagaatgaaaatcacttcacacttgctt
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GTTCATGCACTCGAGACTGCGAACGCATGCTGAATCAATTGCTTTCTTTGGTGGTGGATCAAGAGAGAAAGCTgtgagt-tccttcacactagatacataatacttaaaatttgtttatgcctgcttgccattgtatttgttatctgtcttctggttata-ttattttattgtga---
upper sequence: GLYMA11G38160.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G060045_T01 (Zea mays), 5'ss of exon 17
GTTCATGCATGAAAGACTCTGTACTCATGCTGAATCAGTTGCTTTCTTTGGAGGTGGAGCTCGAGAAAAAGCTgtgagcatc-ccatctaaacaatatttaa---tatcttttctttaagggtgtttttattt-tagaaggtg--caaactt-tagaatgaaaatcacttcacacttgctt
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GTTCATGCACTCGAGACTGCGGACACATGCTGAATCAATTGCTTTCTTTGGTGGTGGTTCAAGAGAAAAAGCGgtgagtgccatcattaatacaactcccaaccctattctagggttagggtttcccacataaatggatagtgcccaagttcatacaatgagaattgtttagg--------
upper sequence: GLYMA11G38160.1 (Glycine max), 5'ss of exon 19
lower sequence: AT4G39850.1 (Arabidopsis thaliana), 5'ss of exon 18
GTTCATGCATGAAAGACTCTGTACTCATGCTGAATCAGTTGCTTTCTTTGGAGGTGGAGCTCGAGAAAAAGCTgtgagcatcccatctaaacaatatttaatatcttttctttaag--ggtgtttttattttagaaggtgcaaactttagaatgaaaatcacttca-cacttgctt
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GTTTATGCACGAGAGGCTGAACACTCATGCTGAATCTATTGCATTCTTTGGAGGTGGAGCTCGAGAAAAGGCTgtaagtttcttaattgccctagctatagctgctggattttgggtagttatttttgaatca-aagctaccggaagtgaacttggaattgttttatcatttat--
upper sequence: GLYMA11G38160.1 (Glycine max), 5'ss of exon 19
lower sequence: AT4G39850.3 (Arabidopsis thaliana), 5'ss of exon 18
GTTCATGCATGAAAGACTCTGTACTCATGCTGAATCAGTTGCTTTCTTTGGAGGTGGAGCTCGAGAAAAAGCTgtgagcatcccatctaaacaatatttaatatcttttctttaag--ggtgtttttattttagaaggtgcaaactttagaatgaaaatcacttca-cacttgctt---------------------------------------------------------------------------------------------------
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------------------GAACACTCATGCTGAATCTATTGCATTCTTTGGAGGTGGAGCTCGAGAAAAGGCTGTAAGTTTCTTAATTGCCCTAGCTATAGCTGCTGGATTTTGGGTAgttatttttgaatca-aagctaccggaagtgaacttggaattgttttatcatttatgtgatgatggtcttttcatgtcaaatgtggcttcacttgtgtgagctttaacatgtctcataggtgaatctgctcttattttatttctctccatggagcag
upper sequence: GLYMA11G38160.1 (Glycine max), 5'ss of exon 19
lower sequence: AT4G39850.2 (Arabidopsis thaliana), 5'ss of exon 18
GTTCATGCATGAAAGACTCTGTACTCATGCTGAATCAGTTGCTTTCTTTGGAGGTGGAGCTCGAGAAAAAGCTgtgagcatcccatctaaacaatatttaatatcttttctttaag--ggtgtttttattttagaaggtgcaaactttagaatgaaaatcacttca-cacttgctt------------------------------------------------------------------------------------------------
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GTTTATGCACGAGAGGCTGAACACTCATGCTGAATCTATTGCATTCTTTGGAGGTGGAGCTCGAGAAAAGGCTgtaagtttcttaattgccctagctatagctgctggattttgggtagttatttttgaatca-aagctaccggaagtgaacttggaattgttttatcatttatgtgatgatggtcttttcatgtcaaatgtggcttcacttgtgtgagctttaacatgtctcataggtgaatctgctcttattttatttctctccatggagMapped 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|7478771|gb|AW666400.1|AW666400EST: CTCATGCTGAATCTGTTGCTTTCTTTGGAGGTGGAGCTCGAGAAAAAGCT ATGGTTGAATCAAGATTCAGAGAGCTTCTCTCCCAC
genomic: CTCATGCTGAATCAGTTGCTTTCTTTGGAGGTGGAGCTCGAGAAAAAGCTgtgagcatcc ... cttcttgcagATGGTTGAATCAAGATTCAGAGAGCTTCTCTCCCAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTCATGCATGAAAGACTCTGTACTCATGCTGAATCAGTTGCTTTCTTTGGAGGTGGAGCTCGAGAAAAAGCTgtgagcatcccatctaaacaatatttaatatcttttctttaagggtgtttttattttagaaggtgcaaactttagaatgaaaatcacttcacacttgctt
- - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT