Sequence
atgc intronic sequence ATGC exonic sequenceCTGATCGTGGGCGGTTCACTGAAGTGAAGAGATCTGTGGTAGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGgtcaatattggactaaactttatttttttccctgtaaatctgattattgtgaatgcagattttattaaacatgttacacattggaaatcatattatgacttatttcttctaaaaacttattaaatactttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacag
Basic information
species | Glycine max |
transcript | GLYMA11G33480.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G33480.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os03g50540.1 (Oryza sativa), 5'ss of exon 2
CTGATCGTGGGCGGTTCACTGAAGTGAAGAGATCTGTGGTAGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGgtcaatattggactaaactttatttttttccctgtaaatctgattattgtgaatgcagattttattaaacatgttacacattggaaatcatattatgacttatttcttctaaaaacttattaaatactttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacag
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CTGACCGTGGTCGGTTCACTGAGATGAAGCGGTCCGTTGTGGACAAGAATTTGGGCCCATTGGTGAAGACAGTGATGACCCGTTGCATCCAATGTACAAGgt-aatgttt-------ttttttttgcttttcagtagatttga-----atgagtatccacttaaagaggtttactgc-tgttcagttttgt-ctattgtctgctccctctg----cttc-------------------------------------------------------------
upper sequence: GLYMA11G33480.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G126038_T01 (Zea mays), 5'ss of exon 2
CTGATCGTGGGCGGTTCACTGAAGTGAAGAGATCTGTGGTAGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGgtcaatattggactaaactttatttttttccctgtaaat-ctgattattgtgaatgcag--attttattaaacatgttacacat-tggaaatcatattatgacttatttcttctaaaaacttattaaatactttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacag
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CTGACCGCGGTCGGTTCACTGAGATGAAGCGTTCAGTTGTGGACAAGAATTTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgt------------aatgcctttttgcttcttgataaatattaattgttatcgtttcaggtattttttcaggcatatcctgtttgtgtgtatcctgcaagggcttcattctt------------------------------------------------------------------------
upper sequence: GLYMA11G33480.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G145854_T01 (Zea mays), 5'ss of exon 2
CTGATCGTGGGCGGTTCACTGAAGTGAAGAGATCTGTGGTAGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGgtcaatattggactaaactttatttttttccctgtaaatctgattattgtgaatgcagat--tttattaaacatgttacacattggaaatcatattatgacttatttcttctaaaaacttattaaatactttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacag
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CTGACCGCGGTCGGTTCACTGAGATGAAGCGGTCAGTTGTGGACAAGAATCTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgt-gatgct---------tttttgcttgttgataaaagtct-attgttcttgtttcaggtaatttttcaggcctatcctgtttatatatgtgtattctg-cagggtcattct----------------------------------------------------------------------
upper sequence: GLYMA11G33480.1 (Glycine max), 5'ss of exon 2
lower sequence: AT5G37510.2 (Arabidopsis thaliana), 5'ss of exon 2
CTGATCGTGGGCGGTTCACTGAAGTGAAGAGATCTGTGGTAGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGgtcaatattggactaaactttatttttttccctgtaaatctgattattgtgaatgcag-attttattaaacatgttacacattggaaatcatattatgacttatttcttctaaaaacttattaaatactttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacag
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CTGATAGAGGACGTTTTACTGAGATGAAAAGATCTGTTGTTGATAAGAATCTTGGTCCTCTTGTGAAGACTGTTATGACTCGGTGTATCCAGTGTACAAGgttactaatatagtttgctt-atagtgtgatgttttagtt--aatgtgatagatacgctatcctgttgattaggttttgtatgtataatgtttttgtag----------------------------------------------------------------------------------
upper sequence: GLYMA11G33480.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv14s0006g02020.t01 (Vitis vinifera), 5'ss of exon 2
CTGATCGTGGGCGGTTCACTGAAGTGAAGAGATCTGTGGTAGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGgtcaatattggactaaactttatttttttccctgtaaatctgattattgtgaatgcagattttattaaacatgttacacattgg---aaatcatattatgacttatttcttctaaaaacttattaaatactttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacag
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CTGATCGCGGCCGTTTCACTGACATGAAGCGATCTGTGGTTGATAAGAATCTTGGCCCTTTGGTTAAGACTGTGATGACTCGTTGCATTCAGTGTACACGg----tat--gaatgtgtgatcacttctcccttgt----tttattactattaatatgaatatt--tcaagttaagaaactttggtctaagtgggattttacctaattttcag-----------------------------------------------------------------------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|9986365|gb|BE660473.1|BE660473EST: CTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAG GTGTGTTAGATTTGCAACAGAGGTTGCTGGGGTTCAGGATCTTGGCATGTT
genomic: CTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGgtcaatattg ... ctttcaacagGTGTGTTAGATTTGCAACAGAGGTTGCTGGGGTTCAGGATCTTGGCATGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGATCGTGGGCGGTTCACTGAAGTGAAGAGATCTGTGGTAGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGgtcaatattggactaaactttatttttttccctgtaaatctgattattgtgaatgcagattttattaaacatgttacacattggaaatcatattatgacttatttcttctaaaaacttattaaatactttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacag
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