Sequence
atgc intronic sequence ATGC exonic sequencegtatgatatgtcctcctttccacctaatattttcagtactaacaacaatttgtgaatttgttcttttttggggattaattcagtaggttattgaattttaagtatttgttgattaagttcaaaagattgacagaaaaggcatatacagGTTCGGGGTTTTCTCCTTAACTTTGGTGTGTACTATGCCACTAGAGCTGCCCTTGGGCTTGCATTTGAATGGAG
Basic information
species | Glycine max |
transcript | GLYMA02G26820.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G26820.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os07g38850.1 (Oryza sativa), 3'ss of exon 4
gtatgatatgtcctcctttccacctaatattttcagtactaacaacaatttgtgaatttgttcttttttggggattaattcagtaggttattgaattttaagtatttgttgattaagttcaaaagattgacagaaaaggcatatacagGTTCGGGGTTTTCTCCTTAACTTTGGTGTGTACTATGCCACTAGAGCTGCCCTTGGGCTTGCATTTGAATGGAG
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----------------------------------------------tgcatatgattttgattactaactcatatttatttttcaa--tatttcattcattatatatatatatatattttgacaaacccaccattcaatttttattagGTCCGTGGTTTTCTTCTCAACTTTGGTGTGTACTATGCTACTAGAGCAGCACTGGGTCTTACATTCCAATGGAG
upper sequence: GLYMA02G26820.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G11945.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatgatatgtcctcctttccacctaatattttcagtactaacaacaatttgtgaatttgttcttttttggggattaattcagtaggttattgaattttaagtatttgttgattaagttcaaaagattgacagaaaaggcatatacagGTTCGGGGTTTTCTCCTTAACTTTGGTGTGTACTATGCCACTAGAGCTGCCCTTGGGCTTGCATTTGAATGGAG
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-----gtaaatgctgttttatgcttcttaatcaatatacaactatcaccttatg----tgatatttttcgtggcttgg--------------gaacttttaataaca--taattctgt-------attgacatt----tcttat-cagGTACGAGGTTTCCTTCTTAACTTTGGTGTGTACCATGCTACAAGAGCTGCTCTTGGACTTCCATTTCAGTGGAG
upper sequence: GLYMA02G26820.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g07200.t01 (Vitis vinifera), 3'ss of exon 4
gtatgatatgtcctcctttccacctaatattttcagtactaacaacaatttgtgaatttgttcttttttggggattaattcagtaggttattgaattttaagtatttgttgattaagttcaaaagattgacagaaaa--ggcatatacagGTTCGGGGTTTTCTCCTTAACTTTGGTGTGTACTATGCCACTAGAGCTGCCCTTGGGCTTGCATTTGAATGGAG
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------------------------------------------agtttgttagcacattttgctgttttttgtgaaaaattaa--aattcgttgctgctcatgtacct------tcagccagataatgtaacagaagactaacttttgcagGTACGGGGTTTTCTTCTTAATTTTGGTGTATATTATGCCACAAGAGCTGCACTTGGACTTCCATTTATGTGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattttaagtatttgttgattaagttcaaaagattgacagaaaaggcatatacagGTTCGGGGTTTTCTCCTTAACTTTGGTGTGTACTATGCCACTAGAGCTGCCCTTGGGCTTGCATTTGAATGGAG
gattgac putative branch site (score: 3)
tatttgttgattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgatatgtcctcctttccacctaatattttcagtactaacaacaatttgtgaatttgttcttttttggggattaattcagtaggttattgaattttaagtatttgttgattaagttcaaaagattgacagaaaaggcatatacagGTTCGGGGTTTTCTCCTTAACTTTGGTGTGTACTATGCCACTAGAGCTGCCCTTGGGCTTGCATTTGAATGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC