Sequence
atgc intronic sequence ATGC exonic sequencegtaattccactggacttgtatttttgaatgagcccaatccctttcaatgttcttcgttgtggctttgtagttatctgattttgtttcttattgtagGGATGTTAAATATCATGAACCTGAGTTTTGGAAGTTTGGAGAAGAGGGGAACAAATATTTCCGACATGCAACTGGGCAGATATATGCAATCTCTAAGGAT
Basic information
species | Glycine max |
transcript | GLYMA14G33700.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G33700.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os09g27950.1 (Oryza sativa), 3'ss of exon 8
gtaattccactggacttgtatttttgaatgagccc----aatccctttcaatgttcttcgttgtggctttgtagttatctgattttgtttcttattgt-agGGATGTTAAATATCATGAACCTGAGTTTTGGAAGTTTGGAGAAGAGGGGAACAAATATTTCCGACATGCAACTGGGCAGATATATGCAATCTCTAAGGAT
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gtaaatattctggaa--acaacataaaactacttctggaagctccatcgtatgaaatctctagatgcta-atattcatttttccctgcatctttttatcagAAATGTGAAATACCACGAGCCTGAGTTCTGGAAGTTTGGCGAAGACGGGAACAAGTATTTCCGCCATGCCACTGGGCAGATATATGCCATCTCAAAGGAC
upper sequence: GLYMA14G33700.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g35870.1 (Oryza sativa), 3'ss of exon 8
gtaattccactggacttgtatttttgaatgagcccaatccctttcaatgttcttcgttgtggctttgtagttatctgattttgtttcttat-tgtagGGATGTTAAATATCATGAACCTGAGTTTTGGAAGTTTGGAGAAGAGGGGAACAAATATTTCCGACATGCAACTGGGCAGATATATGCAATCTCTAAGGAT
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gtaacgttaact--cccctatcttgaaat---ttaaatttgact---tgtagcttgaagtaaatgt----ctgcttgaactggctcctttcatacagGAATGTGAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGGAACAAATACTTCCGTCATGCTACTGGGCAGATATACGCGATTTCAAAAGAC
upper sequence: GLYMA14G33700.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G133613_T01 (Zea mays), 3'ss of exon 8
---gtaattccactggacttgtatttttgaatgagcccaatc----cctttcaatgttcttcgttgtggctttgtagttatctgattttgtttcttattgtagGGATGTTAAATATCATGAACCTGAGTTTTGGAAGTTTGGAGAAGAGGGGAACAAATATTTCCGACATGCAACTGGGCAGATATATGCAATCTCTAAGGAT
|||||| ||| | | | | | | ||| | | ||| | | || || | | | |||| | | | ||| ||| ||||| ||||| |||||||| |||||||| ||||| || |||||||| || ||||| || || || ||||||||||| || ||||| |||||
gtataaattcctctgaaaaaaaagcagcgcagcattcgaattgaatcgtcgaaataccagccttcgttttgacatacatgttttctttt-tcccccacatcagGAATGCGAAATACCATGAGCCTGAGTTCTGGAAGTTCGGAGAGGACGGGAACAAGTACTTCCGCCACGCCACGGGGCAGATATACGCCATCTCCAAGGAC
upper sequence: GLYMA14G33700.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G013079_T01 (Zea mays), 3'ss of exon 8
---gtaattccactggacttgtatttttgaatgagcccaatccctttcaatgttcttcgttgtggctttgtagttatctga-ttttgtttcttattgtagGGATGTTAAATATCATGAACCTGAGTTTTGGAAGTTTGGAGAAGAGGGGAACAAATATTTCCGACATGCAACTGGGCAGATATATGCAATCTCTAAGGAT
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atgacaagtaatgtttgtttctacactgttacaaacatgagttcagacactagattgaagtattaattgaggcctgcttgaaccttctctattcatatagGAATGTTAAGTACCATGAACCTGAGTACTGGAAATTTGGGGAGGAAGGAAATAAATACTTCCGTCATGCCACGGGGCAGATATATGCCATTTCGAAAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcaatgttcttcgttgtggctttgtagttatctgattttgtttcttattgtagGGATGTTAAATATCATGAACCTGAGTTTTGGAAGTTTGGAGAAGAGGGGAACAAATATTTCCGACATGCAACTGGGCAGATATATGCAATCTCTAAGGAT
atctgat putative branch site (score: 4)
ttttgtttcttatt CT-rich tract
attttgtttcttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattccactggacttgtatttttgaatgagcccaatccctttcaatgttcttcgttgtggctttgtagttatctgattttgtttcttattgtagGGATGTTAAATATCATGAACCTGAGTTTTGGAAGTTTGGAGAAGAGGGGAACAAATATTTCCGACATGCAACTGGGCAGATATATGCAATCTCTAAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT