Sequence
atgc intronic sequence ATGC exonic sequence...taagcagttatgtttctatatgttcaagcttaatttggtgtcttaaacttggttatatatctagtaatttcttatattcattgtttatgttattttgcagTGTAATTGTTGAGGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGCTCATCACTGGAGCCTATTCTACGCAGAGTT
Basic information
species | Glycine max |
transcript | GLYMA08G06320.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G06320.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os02g35470.3 (Oryza sativa), 3'ss of exon 2
-taagcagttatgtttctatatgttcaagcttaatttggtgtcttaaacttggtta-tatatctagtaatttcttatattcattgtttatgttattttgcagTGTAATTGTTGAGGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGCTCATCACTGGAGCCTATTCTACGCAGAGTT
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taaattttttttgtgtatatccttgaaattgcaaaaatatgtttgtatcttagttgctcgatttagaggttgctcac-ttaacaaatgacac-atattgcagTGTCATTGTGGAAGCTCTTAAGGTGGATAGTTTGCAGAAGCTTTGTTCATCACTGGAGCCAATTCTTCGTAGAGTT
upper sequence: GLYMA08G06320.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os02g08120.2 (Oryza sativa), 3'ss of exon 2
---taagcagttatgtttctatatgttcaagcttaatttggtgtcttaaacttggttatatatctagtaatttcttatattcattgtttatgttattttgcagTGTAATTGTTGAGGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGCTCATCACTGGAGCCTATTCTACGCAGAGTT
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ccttgcgtgttcattactgtaaagctcaacatgtgagaaggtgaattgcgtctt-ttgttcttctgtcatgattttttccgcttcgcctctttc--tctgcagTGTTATTGTTGAAGCATTAAAGGTGGATAGTCTGCAGAGGCTTTGCTCATCACTGGAACCAATTCTTCGTAGAGTG
upper sequence: GLYMA08G06320.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G113453_T01 (Zea mays), 3'ss of exon 2
taagcagttatgtttctatatgttcaagcttaatttggtgtcttaaact--tggttatatatctagtaatttcttatattcattgtttatgt--tattttgcagTGTAATTGTTGAGGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGCTCATCACTGGAGCCTATTCTACGCAGAGTT
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-aagtaaatttggtagagtttatt---ggtaggttctggtttttgatctaccgctcttcaaactacaaatatgtttgttgcttagctaacgaaacatttttcagTGTCATTGTGGAAGCTCTCAAGATGGACAGTTTGCAGAAACTCTGTTCATCGCTTGAGCCTATTCTCCGAAGAGTT
upper sequence: GLYMA08G06320.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 1
taagcagttatgtttctatatgttcaagcttaatttggtgtcttaaacttggtta-tatatctagtaatttcttatattcattgtttatgttattttgcagTGTAATTGTTGAGGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGCTCATCACTGGAGCCTATTCTACGCAGAGTT
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caaacaaaggaatcgaggca-gtgggttttttgtattattaattagttccgttttctatgccctgttattttgtttgttgaaatgtacttttgttttgcagTGTAATAGTTGAAGCTCTGAAGGTGGATAGTCTGCAGAAACTTTGCTCATCATTGGAACCTATTCTTCGGAGAGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacttggttatatatctagtaatttcttatattcattgtttatgttattttgcagTGTAATTGTTGAGGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGCTCATCACTGGAGCCTATTCTACGCAGAGTT
ttatttt CT-rich tract
ttatatatctagtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taagcagttatgtttctatatgttcaagcttaatttggtgtcttaaacttggttatatatctagtaatttcttatattcattgtttatgttattttgcagTGTAATTGTTGAGGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGCTCATCACTGGAGCCTATTCTACGCAGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - ttcaagc
- - - - - - - - - - - - - - - - - -tggtgtc