Sequence
atgc intronic sequence ATGC exonic sequence...gttaatgcttaggatcaagacttgtcctagttgtgattgattgattaacttgggtttgaatttgagttttataaaaaataatcttctgaatggttcttagGCTGGCCAGCATTCCACCAATCAACTGTGCATTCTAGTCCTCTTCTATATGACATTGACAAAGATGGAGTGAGAGAAATAGCTTTGGCAACCTACAATGG
Basic information
species | Glycine max |
transcript | GLYMA01G27250.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G27250.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g61050.1 (Oryza sativa), 3'ss of exon 3
gttaatgcttaggatcaagacttgtcctagttgtgattgattgattaacttgggtttgaatttga--gttttataaaaaataatcttctgaa-tggttcttagGCTGGCCAGCATTCCACCAATCAACTGTGCATTCTAGTCCTCTTCTATATGACATTGACAAAGATGGAGTGAGAGAAATAGCTTTGGCAACCTACAATGG
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ccacattttaaaggtcctgaaa-gtttgtgctataattaacaaaagaatt--ggtttaatgttgtttatttattaatatatattgttgtgaaattgattccagGATGGCCTGCATTTCACCAGTCAAATGTTCATTCAAGTCCACTTCTATATGATATTGACAAGGACGGGACACGGGAAATAGTTTTGGCAACTTACAATGG
upper sequence: GLYMA01G27250.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G09090.1 (Arabidopsis thaliana), 3'ss of exon 3
-------------------gttaatgcttaggatcaagacttgtcctagttgtgattgattgattaacttgggtttgaatttgagttttataaaaaa-----taatcttctgaatggttcttagGCTGGCCAGCATTCCACCAATCAACTGTGCATTCTAGTCCTCTTCTATATGACATTGACAAAGATGGAGTGAGAGAAATAGCTTTGGCAACCTACAATGG
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gtacaagatatcttatcttctttacctttagctttctgaaattttatt-ttgtgctttgttcatttgatgctgtagaatattaaggattttgaaaaggttactgatgctctcataaatttctagGTTGGCCTGCTTTTCACCAGTCAAATGTGCACTCGAGTCCTCTTCTATTTGATATCGACAAAGATGGTGTTAGAGAAATTGCTCTGGCTACCTACAATGC
upper sequence: GLYMA01G27250.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g01790.t01 (Vitis vinifera), 3'ss of exon 3
gttaatgcttaggatcaagacttgtcctagttgtgattgattg-attaacttgggtttgaatttgagttt-tataaaaaataatcttctgaatggttcttagGCTGGCCAGCATTCCACCAATCAACTGTGCATTCTAGTCCTCTTCTATATGACATTGACAAAGATGGAGTGAGAGAAATAGCTTTGGCAACCTACAATGG
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-atattttattgatgaaagaaaagtgctacttatggagaaatgcaatgatactgattttcccagatgcttgtattgagtttaatgctgtta-tacatatcagGCTGGCCTGCATTTCACCAGTCAACTGTCCATTCCAGTCCTCTTCTGTATGATATCGACAAGGATGGTGTAAGAGAAATAGCTTTGGCTACCTACAATGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taacttgggtttgaatttgagttttataaaaaataatcttctgaatggttcttagGCTGGCCAGCATTCCACCAATCAACTGTGCATTCTAGTCCTCTTCTATATGACATTGACAAAGATGGAGTGAGAGAAATAGCTTTGGCAACCTACAATGG
ttctt CT-rich tract
tttgaatttgagtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaatgcttaggatcaagacttgtcctagttgtgattgattgattaacttgggtttgaatttgagttttataaaaaataatcttctgaatggttcttagGCTGGCCAGCATTCCACCAATCAACTGTGCATTCTAGTCCTCTTCTATATGACATTGACAAAGATGGAGTGAGAGAAATAGCTTTGGCAACCTACAATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA