Sequence
atgc intronic sequence ATGC exonic sequenceAGTTGCAATCAAGAAGATCGGCAACGCATTTGACAATATAATTGATGCTAAGAGAACATTGAGAGAAATCAAGCTCCTTCGTCACATGGACCATGATAATgtaagtgctcacctctatgtacccctgcaaagtgaggacatggtttttcaaatagtataatattttccaagtaatcatgatgcaattgtttttataaatt...
Basic information
species | Glycine max |
transcript | GLYMA08G02060.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G02060.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os10g38950.1 (Oryza sativa), 5'ss of exon 2
AGTTGCAATCAAGAAGATCGGCAACGCATTTGACAATATAATTGATGCTAAGAGAACATTGAGAGAAATCAAGCTCCTTCGTCACATGGACCATGATAATgtaag---tgctcacctctatgtacccctgcaaagtgaggacatggtttttcaaa--tagtataatattttccaagtaatcatgatgcaattgtttttataaatt
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AGTTGCCATCAAGAAGATTGGCAATGCATTCGACAACCATATCGATGCCAAGCGGACACTGAGAGAAATCAAGCTGCTTCGCCACATGGACCACGAGAATgtaagagctgtttgtttaaattggttttcgacattcctagtgattattgatcgaacttggccttaccactattaggtaatttattgggtgtgatttacat-----
upper sequence: GLYMA08G02060.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G123886_T01 (Zea mays), 5'ss of exon 2
AGTTGCAATCAAGAAGATCGGCAACGCATTTGACAATATAATTGATGCTAAGAGAACATTGAGAGAAATCAAGCTCCTTCGTCACATGGACCATGATAATgtaagtgctcacctctatgtac------ccctgcaaagtga-ggacatggtttttcaaata-gtataatattttccaagtaatcatgatgcaattgtttttataaatt
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GGTCGCCATCAAGAAGATCGGCAACGCGTTTGACAACCAGATCGACGCCAAGCGCACTCTCCGAGAAATCAAGCTGCTTAGGCACATGAATCATGAAAATgtgagtagccatgtatatgtatatatttctctaccttgtgatgaacatatatatttatatatatactccacgctacaggacttttttttgtcattgtatg--------
upper sequence: GLYMA08G02060.1 (Glycine max), 5'ss of exon 2
lower sequence: AT4G11330.1 (Arabidopsis thaliana), 5'ss of exon 2
AGTTGCAATCAAGAAGATCGGCAACGCATTTGACAATATAATTGATGCTAAGAGAACATTGAGAGAAATCAAGCTCCTTCGTCACATGGACCATGATAATgtaagtgctcacctctatgtacccctgcaaagtgaggacatggtttttcaaatagtataatattttccaagtaatcatgatgcaattgtttttataaatt
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GATTGCGATAAAGAAGATAGGTAAAGCCTTTGATAATAAAGTAGATGCAAAGAGAACATTGAGAGAGATTAAGCTACTTCGTCATTTAGAACACGAGAACgtaagttttgtactctat-tttcgcggtaaac----gattagagtttctagctaatgtggtcttgacttgtacag-------------------------
upper sequence: GLYMA08G02060.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv02s0025g00270.t01 (Vitis vinifera), 5'ss of exon 2
AGTTGCAATCAAGAAGATCGGCAACGCATTTGACAATATAATTGATGCTAAGAGAACATTGAGAGAAATCAAGCTCCTTCGTCACATGGACCATGATAATgtaagtgctcacctctatgtacccctgcaaagtgaggacatggtttttca-------aatagtata-atattttccaagtaatcatgatgcaattgttt-ttataaatt
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GGTTGCCATTAAGAAGATTGGTAATGCATTTGACAACAGAATAGATGCCAAAAGGACCTTAAGAGAAATTAAGCTCCTTCGTCACATGGATCATGAAAATgtgagt-ttgatttccttg---ctctaaaagatctcaacatacttgtttgcctcctgggtcttgtgcatttctctttcttaattatgatgagtttcttcattgt-----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|213589538|gb|DB973209.1|DB973209EST: AGAGAACATTGAGAGAAATCAAGCTCCTTCGTCACATGGACCATGATAAT ATTATTGCCATCAAGG
genomic: AGAGAACATTGAGAGAAATCAAGCTCCTTCGTCACATGGACCATGATAATgtaagtgctc ... tctttcacagATTATTGCCATCAAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTTGCAATCAAGAAGATCGGCAACGCATTTGACAATATAATTGATGCTAAGAGAACATTGAGAGAAATCAAGCTCCTTCGTCACATGGACCATGATAATgtaagtgctcacctctatgtacccctgcaaagtgaggacatggtttttcaaatagtataatattttccaagtaatcatgatgcaattgtttttataaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccctgc