Sequence
atgc intronic sequence ATGC exonic sequenceGCCCAAGCTCAAGGCCACGCCACTGTCTTCGTCGCCAAATTCTTCGGCCGTGCCGGCCTCATGTCCTTCATTTCCAACGTTCCAGAAAATCAAAGACCCGgtaataatttaacctttttttcttctttctatggaagaaatttgaacccgcaatctctcttcttctcttcttttaaccattaagtcctctttcctattga...
Basic information
species | Glycine max |
transcript | GLYMA05G22120.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G22120.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os07g40000.1 (Oryza sativa), 5'ss of exon 1
GCCCAAGCTCAAGGCCACGCCACTGTCTTCGTCGCCAAATTCTTCGGCCGTGCCGGCCTCATGTCCTTCATTTCCAACGTTCCAGAAAATCAAAGACCCGgtaataatttaacctttttttcttctttctatggaagaaatttgaacccgcaatctctcttcttctcttcttttaaccattaagtcctctttcctattga
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GCCGAGGCGCAGGGCCACGCCACCGTGTTCGTCGCCAAGTTCTTTGGCCGCGCCGGCCTCATGTCCTTCCTCACCGCCGTCCCCGAGCCGCAGCGCGCAGgtaagggtgggga------tccgtactacgatggatggtttaccggtgagtgcgcgcgcgtgttcttggctgatggg-atggcgtggttggttgcag---
upper sequence: GLYMA05G22120.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os03g33090.1 (Oryza sativa), 5'ss of exon 1
GCCCAAGCTCAAGGCCACGCCACTGTCTTCGTCGCCAAATTCTTCGGCCGTGCCGGCCTCATGTCCTTCATTTCCAACGTTCCAGAAAATCAAAGACCCGgta---ataatttaacctttttttcttctttctatggaagaaatttgaacccgcaatctctcttcttctcttcttttaaccattaagtcctctttcctattga
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GCCGACGCGCAGGGCCACGCCACCGTCTTCGTCGCCAAGTTCTTCGGCCGCGCCGGACTCCTCTCCTTCATCTCCGCTGTCCCCGAGGCGCAGCGACCTGgtatgtagaatacaatccatcacggctctgcacgtgtaccgtacatattcctgta-cgaagcagctgaccatatgtcgttggttgcgcgcag-----------
upper sequence: GLYMA05G22120.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G177110_T01 (Zea mays), 5'ss of exon 1
GCCCAAGCTCAAGGCCACGCCACTGTCTTCGTCGCCAAATTCTTCGGCCGTGCCGGCCTCATGTCCTTCATTTCCAACGTTCCAGAAAATCAAAGACCCGgtaat------aatttaacctttttttcttct----ttctatgga----agaaatttgaacccgcaatctctcttcttctcttcttttaaccattaagtcctctttcctattga-----------------------------------------------------------------------
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GCCGAGGCCCAGGGCCACGCCACCGCCTTCGTCGCCAAGTTCTTCGGCCGCGCCGGCCTCATGTCCTTGCTCACCGCCGTCCCCGAGCCGCAGCGCCCAGgtaatcctctcgactcagcggtaataaatccaggtgctgcatggttcgcgggtgtccgtacggtcgagtgtttacccacccaccccacggcccacggccacgcatcacgtgtgatcgagatccttgactgacgagagtgatgtgctcgctcgctcgctcgtacgtgcggtgcgacgacgatgcag
upper sequence: GLYMA05G22120.1 (Glycine max), 5'ss of exon 1
lower sequence: AT3G49940.1 (Arabidopsis thaliana), 5'ss of exon 1
GCCCAAGCTCAAGGCCACGCCACTGTCTTCGTCGCCAAATTCTTCGGCCGTGCCGGCCTCATGTCCTTCATTTCCAACGTTCCAGAAAATCAAAGACCCGgtaataatttaacctttttttcttctttctatggaagaaatttgaacccgcaatctctcttcttctcttcttttaaccattaagtcctctttcctattga
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CCTGAAGCTCAAGGCCACGCCACCGTCTTCGTCGCTAAGTTCTTCGGCCGTGCCGGTTTAATGTCTTTCATCTCCGCCGTACCGGAATCTCAATGCCCTGgtacttaaa-aacaaaaacctctcggtcctttagatcttcgtctaaacgttgtcgttttggtttctgatggtaagggtatttggtctttttacag-----
upper sequence: GLYMA05G22120.1 (Glycine max), 5'ss of exon 1
lower sequence: AT5G67420.1 (Arabidopsis thaliana), 5'ss of exon 1
GCCCAAGCTCAAGGCCACGCCACTGTCTTCGTCGCCAAATTCTTCGGCCGTGCCGGCCTCATGTCCTTCATTTCCAACGTTCCAGAAAATCAAAGACCCGgtaataatttaacctttttttcttctttctatggaagaaatttgaacccgcaatctctcttcttctcttcttttaaccattaagtcctctttcctattga
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GCCGATGCTCAAGGCCACGCCACCGTCTTCGTCGCTAAATTCTTCGGCCGTGCTGGTCTCATGTCCTTTATCTCCGCTGTTCCGGATTCTCAACGTCCTGgtacttacta-------ctaaaccagatctttaaaccggattttcagtttcatcgttcgtttttctcatcttt-----gttccggtttttgtggtgcag-
upper sequence: GLYMA05G22120.1 (Glycine max), 5'ss of exon 1
lower sequence: AT4G37540.1 (Arabidopsis thaliana), 5'ss of exon 1
GCCCAAGCTCAAGGCCACGCCACTGTCTTCGTCGCCAAATTCTTCGGCCGTGCCGGCCTCATGTCCTTCATTTCCAACGTTCCAGAAAATCAAAGACCCGgtaataatttaacctttttttcttctttctatg-------gaagaaat--ttgaacccgcaatctctcttcttctc---ttcttttaaccattaa-gtcctc--tttcctattga-----------------------
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GCCGAGTCACAAGGCCACGCCACCGTCTTCGTCGCTAAATTCTTTGGTCGTGCTGGTCTCATGTCTTTCATCTCCTCCGTACCTGAACTCCAACGTCCTGgtacaacttctttttatcactatactatctatttctattcgaatatataacataaccattaggttacaaactctacggatctatacaacttttaatgtttttgattttaaattgatttttatgttttggtttgttcag
upper sequence: GLYMA05G22120.1 (Glycine max), 5'ss of exon 1
lower sequence: PP1S54_261V6.1 (Physcomitrella patens), 5'ss of exon 1
-GCCCAAGCTCAAGGCCACGCCACTGTCTTCGTCGCCAAATTCTTCGGCCGTGCCGGCCTCATGTCCTTCATTTCCAACGTTCCAGAAAATCAAAGACCCGgtaataatttaacctttttttcttctttctatggaagaaatttgaacccgcaatctctcttcttctc--ttcttttaaccattaagtcctctttcctattga---------------------------------------------------------------------
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CATGGAAGCTAAAGGGTATGCCACTGTGTTCGTCGCCAAATTCTTTGGCCGTGCTGGGCTTATGGGCTTCATCAGCGCCATGCCGGAACATCAACTAAT-Ggtgtatacatattttactattcgccactccattatatgcttttgaaagccaaacagctgatcagcttcattgttcttgtcttcacgagtttattctaaaaaagcaatatttttatgtttatttttatctttttctcgatgtgcagtattgttccaatctttactgtttgag
upper sequence: GLYMA05G22120.1 (Glycine max), 5'ss of exon 1
lower sequence: EFJ11701 (Selaginella moellendorffii), 5'ss of exon 1
GCCCAAGCTCAAGGCCACGCCACTGTCTTCGTCGCCAAATTCTTCGGCCGTGCCGGCCTCATGTCCTTCATTTCCAACGTTCCAGAAAATCAAAGACCCGgtaa---taatt-taacctttttttcttctttcta---tggaagaaat-------ttgaacccgcaatctctcttcttctcttcttttaaccattaagtcctctttccta--ttga------------------------------------------------------------------------------
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CCCGAGGCGCAAGGCCACGCTACTGTCTTCGTCGCGAAGTTTTTCGGCCGCGCGGGTCTCATGAACTTCATTAGCGCTGTTCCAGAGAATCAAAGGCCAGgtaagcttggccgccaccatggtttccagtttctagctttgaatcaccgttctccttgggtccttggtttctagctctctttggtttctagccttg-gtcgtagtttctagcttgaatcacagctgcttggtttctagctctgatcttctccttggtttctagctttctcatctcgtgttcttctttcgtgcag
upper sequence: GLYMA05G22120.1 (Glycine max), 5'ss of exon 1
lower sequence: EFJ22478 (Selaginella moellendorffii), 5'ss of exon 1
GCCCAAGCTCAAGGCCACGCCACTGTCTTCGTCGCCAAATTCTTCGGCCGTGCCGGCCTCATGTCCTTCATTTCCAACGTTCCAGAAAATCAAAGACCCGgtaataatt----taacctttttttcttctttcta---tggaagaaat-------ttgaacccgcaatctctcttcttctcttcttttaaccattaagtcctctttcctattga------------------------------------------------------------
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CCCGAGGCGCAAGGCCACGCTACTGTCTTCGTCGCGAAGTTTTTCGGCCGCGCGGGCCTCATGAACTTCATTAGCGCTGTTCCAGAGAATCAAAGGCCAGgtaagcttcgccgccaccatggtttctagtttctagctttgaatcaccgttccccttgggtccttggtttctagctctctttcgtttctagcttgaatcacagctgcttggtttctagctttgatcttctccttggtttctagctttctcatctcgtgttcttctttcgtgcagMapped 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|6454952|gb|AW185562.1|AW185562EST: TGCCGGCCTCATGTCCTTCATTTCCAACGTTCCAGAAAATCAAAGACCCG CGCTGTTTCAGTCGCTGCTCTTCGAAGCGTGCGGGAGAACGGTGAACCCCG
genomic: TGCCGGCCTCATGTCCTTCATTTCCAACGTTCCAGAAAATCAAAGACCCGgtaataattt ... ctctatgcagCGCTGTTTCAGTCGCTGCTCTTCGAAGCGTGCGGGAGAACGGTGAACCCCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCCCAAGCTCAAGGCCACGCCACTGTCTTCGTCGCCAAATTCTTCGGCCGTGCCGGCCTCATGTCCTTCATTTCCAACGTTCCAGAAAATCAAAGACCCGgtaataatttaacctttttttcttctttctatggaagaaatttgaacccgcaatctctcttcttctcttcttttaaccattaagtcctctttcctattga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctttcc