Sequence
atgc intronic sequence ATGC exonic sequenceTGGAGTTGAAGAGGCTGGAATTGATGGTGGTGGAATATTCAAAGATTTCATGGAGAACATCACACGTGCTGCCTTTGATGTGCAATATGGATTATTTAAGgtcatagtaatattgtgctattgttaatattttacatgaaggttattttctacactgtatataattttaccacatgaaagaatccaggttgttgaaatat...
Basic information
species | Glycine max |
transcript | GLYMA17G04180.1 |
intron # | 16 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G04180.1 (Glycine max), 5'ss of exon 16
lower sequence: LOC_Os05g06690.1 (Oryza sativa), 5'ss of exon 17
TGGAGTTGAAGAGGCTGGAATTGATGGTGGTGGAATATTCAAAGATTTCATGGAGAACATCACACGTGCTGCCTTTGATGTGCAATATGGATTATTTAAGgtcatagtaatattgtgctattgttaat-attttacatgaaggtta-ttttctacactgtatata-attttaccacatgaaagaatccaggttgttgaaatat
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TGGTGTTGAAGAGGCTGGGATTGACGGAGGTGGAATTTTCAAGGATTTCATGGAAAATATCACTCGAGCCGCTTTTGATGTGCAGTACGGTTTATTCAAGgt-ata-tgatcttttgtcagtttcattgattatgtaatagtgtcagttgtacccactatcagtctatcatactcaatgcaatagctctagttat-attttat
upper sequence: GLYMA17G04180.1 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G034622_T01 (Zea mays), 5'ss of exon 1
TGGAGTTGAAGAGGCTGGAATTGATGGTGGTGGAATATTCAAAGATTTCATGGAGAACATCACACGTGCTGCCTTTGATGTGCAATATGGATTATTTAAGgtcatagtaatattgtgctattgttaatattttacatgaaggttattttctacactgtatataattttaccacatgaaagaatccaggt-tgttgaaatat
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TGGTGAGGAAGAGGTTGGAATTGATGGTGGTGGAATTTTCAAGGATTTCATGGAAAATATTACTCGAGCGGCTTTTGATGTGCAGTACGGTCTCTTCAAGgtatctttttttgggtggtctcattcatccagtgcaatgttatcattg-cagcagcgaccattatttttgtgtcctaaactactaatacatgttactacct
upper sequence: GLYMA17G04180.1 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G034622_T02 (Zea mays), 5'ss of exon 1
TGGAGTTGAAGAGGCTGGAATTGATGGTGGTGGAATATTCAAAGATTTCATGGAGAACATCACACGTGCTGCCTTTGATGTGCAATATGGATTATTTAAGgtcatagtaatattgtgctattgttaatattttacatgaaggttattttctacactgtatataattttaccacatgaaagaatccaggt-tgttgaaatat
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-------------GTTGGAATTGATGGTGGTGGAATTTTCAAGGATTTCATGGAAAATATTACTCGAGCGGCTTTTGATGTGCAGTACGGTCTCTTCAAGgtatctttttttgggtggtctcattcatccagtgcaatgttatcattg-cagcagcgaccattatttttgtgtcctaaactactaatacatgttactacct
upper sequence: GLYMA17G04180.1 (Glycine max), 5'ss of exon 16
lower sequence: AT3G17205.1 (Arabidopsis thaliana), 5'ss of exon 16
TGGAGTTGAAGAGGCTGGAATTGATGGTGGTGGAATATTCAAAGATTTCATGGAGAACATCACACGTGCTGCCTTTGATGTGCAATATGGATTATTTAAGgtcatagtaatattgtgctattgttaatattttacatgaaggttattttctacactg-tatataattttaccacatgaaagaatccaggttgttgaaatat-------------------
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CGGAGTTGAGGAAGCTGGTATTGATGGTGGTGGCATTTTCAAAGACTTCATGGAGAAAATTACCCGAGCAGCCTTTGATGTGCAATACGGGTTGTTTAAGgtcatat--gtctagttttgctcacccaagtttttgtggatttgataatttaccttactccatcatctttgcatttagtacgtctatctttctctgaatattgtacatgctttctttcag
upper sequence: GLYMA17G04180.1 (Glycine max), 5'ss of exon 16
lower sequence: Vv05s0077g00470.t01 (Vitis vinifera), 5'ss of exon 17
TGGAGTTGAAGAGGCTGGAATTGATGGTGGTGGAATATTCAAAGATTTCATGGAGAACATCACACGTGCTGCCTTTGATGTGCAATATGGATTATTTAAGgtcatagtaatattgtgctattgttaatattttacatgaaggttattttctacactgtatataattttaccacatgaaagaatccaggttgttgaaatat-----
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TGGAGTTGAGGAGGCTGGTATTGATGGTGGTGGGATTTTCAAGGATTTCATGGAAAACATTACACGAGCAGCTTTTGACGTGCAGTATGGGTTGTTTAAGgtt---gtaattttctctaaacactgacatctc-tgtgtgagt-gtgtgcatgatgctacacaaatatatgcaggcacacaaccaaccttgttaagttgcacttcMapped 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|14126547|gb|BG790985.1|BG790985EST: TGGAGAACATCACACGTGCTGCCTTTGATGTGCAATATGGATTATTTAAG GAAACAGCGGATCACCTGCTTTATCCTAATCCTGGATCTGGAATGATACAT
genomic: TGGAGAACATCACACGTGCTGCCTTTGATGTGCAATATGGATTATTTAAGgtcatagtaa ... atgtgtctagGAAACAGCGGATCACCTGCTTTATCCTAATCCTGGATCTGGAATGATACAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGAGTTGAAGAGGCTGGAATTGATGGTGGTGGAATATTCAAAGATTTCATGGAGAACATCACACGTGCTGCCTTTGATGTGCAATATGGATTATTTAAGgtcatagtaatattgtgctattgttaatattttacatgaaggttattttctacactgtatataattttaccacatgaaagaatccaggttgttgaaatat
- - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC