Sequence
atgc intronic sequence ATGC exonic sequenceGCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag
Basic information
species | Glycine max |
transcript | GLYMA20G36740.3 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G36740.2 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os10g28200.1 (Oryza sativa), 5'ss of exon 4
GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag
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GCAACTGAGGAGCTCTGCAAGCACTACACCAAGGACTTTGGCATTGAGTGCCGTGTTGGCCGCTTCCACAACATATATGGCCCCTTTGGAACATGGAAAGgtagaagtttaaccaattctccaagttattgaactgtacttgtac----tggggcatccttaactcaatttgtcaatggatag---------------------------------------------
upper sequence: GLYMA20G36740.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G124434_T01 (Zea mays), 5'ss of exon 4
GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag
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GCAACCGAGGAGCTGTGCAAGCACTACACCAAGGACTTTGGCATCGAGTGCCGCGTCGGCCGCTTCCACAACATCTACGGCCCTTTCGGAACATGGAAAGgtgaacctactaccagttttctgggctgtggctgtgaggtcataacaatccaacggcctgataaaaaa---atgctctctttgtctatcag-------------------------------------
upper sequence: GLYMA20G36740.2 (Glycine max), 5'ss of exon 4
lower sequence: AT5G28840.1 (Arabidopsis thaliana), 5'ss of exon 4
GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag
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GCTACGGAGGAGTTGTGTAAGCATTACAACAAAGATTTTGGTATTGAGTGTCGAATTGGAAGGTTCCATAACATTTATGGTCCTTTTGGAACATGGAAAGgtag----tatacaga--taaacagtttccgtactttgt---------gtgaatgattagttgtttactattgggattaatatttgcttggatcaacttag---------------------------
upper sequence: GLYMA20G36740.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ19598 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag
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TGCA-CTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGGATCGAGTGCCGCATTGGACGATTCCACAACATCTATGGGCCCTTTGGGACCTGGAAAGgtgagttca----tagattgagatcttcttctttcttctttagcctgagtgggagtaactgagattgtttcaaaaccag-------------------------------------------------
upper sequence: GLYMA20G36740.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ34003 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag
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TGCACC-GAAGAGCTGTGCAAGCACTACACCAAGGACTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACAACATCTACGGGCCTTTTGGTACCTGGAAAGgtgagctt-agattc--ttggaacttcctctttcttctcttgctcgaagcttagagtgtgatgggtgactgacaaatcgat---ctcacag-------------------------------------
upper sequence: GLYMA20G36740.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ12864 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgc--tttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag
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TGCAGT-GAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGAAGATTTCACAATATTTATGGGCCTTTTGGTACCTGGAAAGgtgagcggtctaaagtttgttctttactctcgtagctcatgtattggtgattga------tgaaaaacaattcag-------------------------------------------------------
upper sequence: GLYMA20G36740.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ33664 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaat-tggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag
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TGCACC-GAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACAACATCTACGGGCCTTTTGGTACCTGGAAAGgtgagctt-agatt---cttggagcttcctttttcttctcttgctcgaagcttagagtgtgatgggtgactgacaaatcgat---ctcacag-------------------------------------
upper sequence: GLYMA20G36740.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ09286 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgc--tttacactgaattgaaaacttttatagttttgtctttaccaaatgg-gtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag
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TGCAGT-GAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGAAGATTTCACAATATTTATGGGCCTTTTGGTACCTGGAAAGgtgagcggtctaaagtttgttctttactctcgtagctcatgcattggtgattgatgaaaaccaattcag--------------------------------------------------------------
upper sequence: GLYMA20G36740.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ18599 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag
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TGCA-CTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGGATCGAGTGCCGCATTGGACGATTCCACAACATCTATGGACCCTTTGGGACCTGGAAAGgtg-acttca---tagattgagatcttcttctttcttctttagcttgagtgggagtaactg-agattgtttcaataccag------------------------------------------------
upper sequence: GLYMA20G36740.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ37510 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaat-tggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag
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TGCACC-GAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACAACATCTACGGGCCTTTTGGTACCTGGAAAGgtgagctt-agatt---cttggaacttcctttttcttctcttgctcgaagcttagagtgtgatgggtgactgacaaatcgat---ctcacag-------------------------------------
upper sequence: GLYMA20G36740.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ37016 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaat-tggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag
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TGCA-CGGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGAATCGAGTGCCGGATTGGGCGCTTCCACAACATCTACGGGCCTTTTGGTACCTGGAAAGgtgagctt-agatt---cttggaacttcctttttcttctcttgctcgaagcttagagtgtgatgggtgactgacaaatcgat---ctcacag-------------------------------------
upper sequence: GLYMA20G36740.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ10353 (Selaginella moellendorffii), 5'ss of exon 3
-GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag
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TGCA-CTGAAGAGCTGTGCAAGCACTACACCAAGGATTTTGGGATCGAGTGCCGCATTGGACGATTCCACAACATCTATGGACCCTTTGGAACCTGGAAAGgtgagttca----tagattgagatcttcttcttgcttctttagcctgagtgggagtaactgagattgtttcaaaaccag-------------------------------------------------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|208297285|gb|GE089294.1|GE089294EST: CCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAG GTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGTAAAGTTATCACTTCCT
genomic: CCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgcttta ... tgtcatacagGTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGTAAAGTTATCACTTCCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAACAGAGGAATTATGCAAGCACTATAACAAGGATTTTGGAATTGAGTGCCGCATTGGGAGGTTCCACAACATATACGGTCCTTTTGGGACATGGAAAGgcatgctttacactgaattgaaaacttttatagttttgtctttaccaaatgggtaaattggtagacattttatgttttggtaaccttttggatttaataagtttgtgttttgttgttttgtcatacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA