Sequence
atgc intronic sequence ATGC exonic sequencegtgtgaatcttctgcaacttctaagttgacttttacctgttcgattgagttttacttagatgcacttaccttaactttgaaagcagGTTTACAATGTTGTTTAGCCATGATTCTGATTCAATGCCTCGTGTTTGGACGGGGAAAGAAGATATACGAGCCATCACCAAGACTGCTCGCTCTTCT
Basic information
species | Glycine max |
transcript | GLYMA08G20610.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G20610.1 (Glycine max), 3'ss of exon 17
lower sequence: AT1G72960.1 (Arabidopsis thaliana), 3'ss of exon 16
---gtgtgaatcttctgcaacttctaagttgactttta---cctgttcgattgagttttacttagatgcacttaccttaactttgaaagcagGTTTACAATGTTGTTTAGCCATGATTCTGATTCAATGCCTCGTGTTTGGACGGGGAAAGAAGATATACGAGCCATCACCAAGACTGCTCGCTCTTCT
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gtatagcaaggcttcttaatgtgcccagtgatctttcaaaaccagtttcaaacaaccatttaatcttgaatctggttgtaattttttttcagGTTTGGTACAATCTTCAGCCATGATTCTGATTCAATGCCACGTGTTTGGACCGGAAAAGAGGATCTTCGAGCAATTACTAAATCAGCTCGATCTGCT
upper sequence: GLYMA08G20610.1 (Glycine max), 3'ss of exon 17
lower sequence: AT3G13870.1 (Arabidopsis thaliana), 3'ss of exon 17
gtgtgaatcttctgcaacttctaagttgactt-ttacctgttcgattgagttttacttagatgcacttaccttaac---tttgaaagcagGTTTACAATGTTGTTTAGCCATGATTCTGATTCAATGCCTCGTGTTTGGACGGGGAAAGAAGATATACGAGCCATCACCAAGACTGCTCGCTCTTCT
|||| | || | | | | | | || | | | || | | ||| | | ||| || | ||| ||| | | | || ||||||||||||||||||||||| ||||||||||| || || || || || |||| || || || | ||||| ||| |
gtgtcaccattttacttgtctttcatcatttccttgtccgataacttccatctcttacagagctttctgattaaacaaacttctatccagATTTGCTACAATCTTCAGCCATGATTCTGATTCAATGCCACGTGTTTGGACTGGAAAGGAGGACATCAGAGCAATTACAAAAATGGCTCGTTCTGCG
upper sequence: GLYMA08G20610.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv09s0002g02200.t01 (Vitis vinifera), 3'ss of exon 17
-----------------gtgtgaatcttctgcaacttctaagttgacttttacctgttcg---attgagttttacttagatgcact-tacc---------ttaacttt---gaaagcagGTTTACAATGTTGTTTAGCCATGATTCTGATTCAATGCCTCGTGTTTGGACGGGGAAAGAAGATATACGAGCCATCACCAAGACTGCTCGCTCTTCT
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gttgcaactgttacattatttgaaattcttttattttccctttttatttttagattacaagaaatcgggatctactgctttggactgtatcaaatggggatggattttactgcatgcagGTTTGCGACATTGTTTAGCCATGATTCTGACTCAATGCCACGTGTCTGGACTGGGAAAGAAGATATTCGTGCAATCACCAAAACTGCTCGTTCTTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttacctgttcgattgagttttacttagatgcacttaccttaactttgaaagcagGTTTACAATGTTGTTTAGCCATGATTCTGATTCAATGCCTCGTGTTTGGACGGGGAAAGAAGATATACGAGCCATCACCAAGACTGCTCGCTCTTCT
ttttactta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgaatcttctgcaacttctaagttgacttttacctgttcgattgagttttacttagatgcacttaccttaactttgaaagcagGTTTACAATGTTGTTTAGCCATGATTCTGATTCAATGCCTCGTGTTTGGACGGGGAAAGAAGATATACGAGCCATCACCAAGACTGCTCGCTCTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG