Sequence
atgc intronic sequence ATGC exonic sequence...ctagtatatatatgcttctctacttgttacgttttggcttagcaagagctgaatcttatacaggagtttgtaaccatgcttttcacttccattgcataagCCGATGGCTCAAGACCCGTCAAGTATGTCCTCTAG
Basic information
species | Glycine max |
transcript | GLYMA12G32060.3 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G32060.3 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g47870.1 (Oryza sativa), 3'ss of exon 3
--------------------------------------ctagtatatatatgcttctctacttgttacgttttggcttagcaagagctgaatcttata-caggagtttgtaaccatgcttttcacttccattgcataagCCGATGGCTCAAGACCCGTCAAGTATGTCCTCTAG
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gtgttgcttttagtggatattgcattttcgcagtgaattaaatcgagctgtgaag-tcaactatccatgtactga-tgaacaatctatctttgttgtgtcagGAGTTTGCAACCATGCATTCCACTTCCACTGCATCAGCCGTTGGCTCAAGACCCGTCAAGTGTGCCCTCTAG
upper sequence: GLYMA12G32060.3 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G361074_T02 (Zea mays), 3'ss of exon 1
------------------------------------ctagta-tatatatgcttctctacttgttacgttttggcttagcaagagctgaatcttatacaggagtttgtaaccatgcttttcacttccattgcataagCCGATGGCTCAAGACCCGTCAAGTATGTCCTCTAG
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tactaagcatgcattgtattttgcaaagcgctgaaactcttagcagagccactgcctcactggactttgaaagaactgacaatctgtttgtattcttcagGAATTTGCAACCATGCATTCCACTTCCACTGTATCAGCCGTTGGCTAAAGACCCGTCAAGTGTGCCCTCTTG
upper sequence: GLYMA12G32060.3 (Glycine max), 3'ss of exon 3
lower sequence: EFJ06425 (Selaginella moellendorffii), 3'ss of exon 2
---ctagtatatatatgcttctctacttgttacgttttggcttagcaagagctgaatctt-atacaggagtttgtaaccatgcttttcacttccattgcataagCCGATGGCTCAAGACCCGTCAAGTATGTCCTCTAG
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gtaagagaagatgatcatagctctattggttttgtgacaatgcaaaacacactctttgtggatccagGCGTGTGCAACCATGCGTTTCACTTCCACTGCATCAGCCGCTGGCTAAAGACTCGCCAAGTCTGCCCTCTCGMapped 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|4284798|gb|AI440826.1|AI440826EST: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGG CCGATGGCTCAAGACCCGTCAAGTATGTCCTCTAG
genomic: CCAGGCCAACCAGGCTAGCGCCACTAGCGAGGAATGCACTGTAGCTTGGGgtacgctctg ... attgcataagCCGATGGCTCAAGACCCGTCAAGTATGTCCTCTAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagctgaatcttatacaggagtttgtaaccatgcttttcacttccattgcataagCCGATGGCTCAAGACCCGTCAAGTATGTCCTCTAG
ttgtaac putative branch site (score: 2)
cttttcacttccatt putative PPT
aatcttata TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctagtatatatatgcttctctacttgttacgttttggcttagcaagagctgaatcttatacaggagtttgtaaccatgcttttcacttccattgcataagCCGATGGCTCAAGACCCGTCAAGTATGTCCTCTAG
- - - - - - -gcttctc
- - - - - - - - - - - - - - - - - - - - - - - agctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagtttg