Sequence
atgc intronic sequence ATGC exonic sequence...ttgatggaagtctttgaatgttattcaatatcaaggatcgaagcaagatctttatctacaggtagcatccggttcatcttgagttttatttattttgcagGCCATGGTCGCTCGTGGGGATCTTGGAGCTGAACTTCCAATAGAGGAAGTTCCTTTATTGCAG
Basic information
species | Glycine max |
transcript | GLYMA01G40860.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G40860.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os10g42100.1 (Oryza sativa), 3'ss of exon 6
ttgatggaagtctttgaatgttattcaatatcaaggatcgaagcaagatcttta--tctacaggtagcatccggttcatcttgagt-tttatttat-tttgcagGCCATGGTCGCTCGTGGGGATCTTGGAGCTGAACTTCCAATAGAGGAAGTTCCTTTATTGCAG
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----tgttttcttttgttctatttctggtttcgtttgtccttgaatgttttacaatttcgtaactgcttagtgctagatactgaatctctgaaaatgtttgtagGCGATGGTGGCAAGAGGGGATCTTGGTGCTGAACTTCCAATTGAGGAAGTTCCTTTGCTGCAG
upper sequence: GLYMA01G40860.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G32440.1 (Arabidopsis thaliana), 3'ss of exon 6
ttgatggaagtctttgaatgttattcaatatcaaggatcgaagcaagatctttatctacaggtagcatccggttcatcttgagttttatttattttgcagGCCATGGTCGCTCGTGGGGATCTTGGAGCTGAACTTCCAATAGAGGAAGTTCCTTTATTGCAG
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------gttggtttcaaagtcttttc--tgtcagagtttatatgttgatacttagc-gcag--agc-cttagcttatat-aattatcaatgctttttcagGCAATGGTTGCTCGTGGAGATCTTGGAGCTGAACTTCCCATTGAAGAGGTCCCGTTGTTACAG
upper sequence: GLYMA01G40860.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0012g01170.t01 (Vitis vinifera), 3'ss of exon 6
ttgatggaagtctttgaatgttattcaatatcaagg-atcgaagcaagatcttt--atctacaggtagcatccggttcatcttgagttttatttattttgcagGCCATGGTCGCTCGTGGGGATCTTGGAGCTGAACTTCCAATAGAGGAAGTTCCTTTATTGCAG
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---gttagggtacttatctttttgggaaaattgctgcaactcacctttattttttgggtcatcatggtcaactgaatcttaattggttgttttgattgtatagGCAATGGTTGCACGTGGGGATCTTGGAGCTGAACTTCCAATTGAGGAAGTCCCTTTATTGCAG
upper sequence: GLYMA01G40860.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S205_25V6.1 (Physcomitrella patens), 3'ss of exon 5
--ttgatggaagtctttgaatgttattca-atatcaaggatcgaagcaagatctttatctacaggtagcatccggttcatcttgagttttatttattttgcagGCCATGGTCGCTCGTGGGGATCTTGGAGCTGAACTTCCAATAGAGGAAGTTCCTTTATTGCAG
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actttatgcatgtgtaaggtcatgttttgcacatcatca--cgaaacgc-attttggtacagtgtgagcgccatattaaaattttcaactgttttcctttcagGCTATGGTTGCTCGAGGAGATCTTGGAGCTGAGCTGCCAATTGAGGAAGTGCCCCTTCTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agatctttatctacaggtagcatccggttcatcttgagttttatttattttgcagGCCATGGTCGCTCGTGGGGATCTTGGAGCTGAACTTCCAATAGAGGAAGTTCCTTTATTGCAG
ttttattt CT-rich tract
atcttgagttttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgatggaagtctttgaatgttattcaatatcaaggatcgaagcaagatctttatctacaggtagcatccggttcatcttgagttttatttattttgcagGCCATGGTCGCTCGTGGGGATCTTGGAGCTGAACTTCCAATAGAGGAAGTTCCTTTATTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
ttgatgg
- - - - -gtctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatccg