Sequence
atgc intronic sequence ATGC exonic sequencegtactgtcagccacgttcccaaaaaattattttgtaaatatggatggaaaatgtttgtgcattcatgtgtttttatttttgggggcagCCGGAGCCAGAATTCCGACCACCAATGTCAGAAGTGGTTCAAGCACTGGTGCGATTAGTGCAGCGAGCTAACATGAGCAAGCGAACATTTAGTAGTAGTG
Basic information
species | Glycine max |
transcript | GLYMA03G42360.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G42360.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os03g08550.2 (Oryza sativa), 3'ss of exon 14
-------------gtactgt-cagccacgttcccaaaaaattattttgtaa-atatggatggaaaatgtttgtgcattcatgtgtttttatttttgggggcagCCGGAGCCAGAATTCCGACCACCAATGTCAGAAGTGGTTCAAGCACTGGTGCGATTAGTGCAGCGAGCTAACATGAGCAAGCGAACATTTAGTAGTAGTG
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gtaggatttcaccatcctatgcagatgagctatgcaatactaattacctaatacatgga-acagaatgtctg---aatcttatgaaacaaattcatgttacagCCTGAACCAGAATTCAGGCCACCAATGTCAGAGGTGGTGCAAGCATTGGTTCGTCTTGTCCAGAGGGCCAACATGACGAAGAGAATGCTCGACGGAGATA
upper sequence: GLYMA03G42360.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G330907_T01 (Zea mays), 3'ss of exon 15
------gtactgtcagccacgttcccaaaa-aattat--tttgtaaatatggatggaaaatgtttgtgcattcatgtgtttttatttttgggggcagCCGGAGCCAGAATTCCGACCACCAATGTCAGAAGTGGTTCAAGCACTGGTGCGATTAGTGCAGCGAGCTAACATGAGCAAGCGAACATTTAGTAGTAGTG
|| | | || | || | | | || | || | || | || | || | | |||| | || | | |||||| || ||||||||| | |||||||||||||| ||||| |||||| |||| ||| | |||||| | || ||||||| ||| | | || | | | |
gtaggagttccattcttcatctatgcaggatagtcatagcacatccatctaaataaataaaatctg---aagcttgtgaaccgaattctcgttgcagCCTGAACCAGAATTCAGGCCACCAATGTCAGAGGTGGTGCAAGCATTGGTTCGACTTGTGCAGAGGGCCAACATGACGAAGAGGATGCTTGATGGAGGAG
upper sequence: GLYMA03G42360.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G153393_T02 (Zea mays), 3'ss of exon 3
---gtactgtcagccacgttcccaaaaaattattttgtaaatatggatggaaaatgtttgtgcattcatgtgtttttatttttgggggcagCCGGAGCCAGAATTCCGACCACCAATGTCAGAAGTGGTTCAAGCACTGGTGCGATTAGTGCAGCGAGCTAACATGAGCAAGCGAACATTTAGTAGTAGTG
| | | || || ||| | || |||| || ||| | || | |||| | || | |||||| || ||||||||| | |||||||||||||| ||||| |||||| |||| ||| | |||||| | || ||||||| ||| | | || | | |
gtagcagttccattcatcatccatgcaggatagccatagcatatccatctaaatagaacctgaacct-tgtgaaccaaattcttattgcagCCTGAACCAGAATTCAGGCCACCAATGTCAGAGGTGGTGCAAGCATTGGTTCGACTTGTGCAGAGGGCCAACATGACGAAGAGGATGCTTGATGGGGATA
upper sequence: GLYMA03G42360.1 (Glycine max), 3'ss of exon 17
lower sequence: AT3G14350.3 (Arabidopsis thaliana), 3'ss of exon 16
gtactgtcagccacgttcccaaaaaattattttgtaaatatggatggaaaatgtttgtgcattcatgtgtttttatttttgggggcagCCGGAGCCAGAATTCCGACCACCAATGTCAGAAGTGGTTCAAGCACTGGTGCGATTAGTGCAGCGAGCTAACATGAGCAAGCGAACATTTAGTAGTAGTG
| | || | | || | || || || | | | | || | || |||| || | | | |||||||||||||| || ||||||| ||||| |||||||| |||||| |||| ||| |||||| ||||||||||||||||| |||| || | |
---------gtaatcatctatatattataatgtgatgatctgaacaaatgaaatctgaatgtatat-tgttcttttaatctgttacagCCGGAGCCAGAGTTTAGACCACCCATGTCTGAAGTGGTGCAAGCATTGGTTGTATTGGTGCAGAGAGCTAACATGAGCAAGAGAACTGTTGGAGTCGGCT
upper sequence: GLYMA03G42360.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 15
---------gtactgtcagccacgttcccaaaaa-----attattttgt---aaatatggatggaaaatgtttgtgcattcatgtgt---ttttatttttgggggcagCCGGAGCCAGAATTCCGACCACCAATGTCAGAAGTGGTTCAAGCACTGGTGCGATTAGTGCAGCGAGCTAACATGAGCAAGCGAACATTTAGTAGTAGTG
|| | || | | || | || || ||| | | ||||| ||| | ||| | | || | |||||| || |||||||| |||||||| ||||| |||||||||||||||||||| |||||||||||||| |||| ||||| || |||||||||||| |||| ||||||
gtaaggtgtttagttaaagtaaagagtgcagatggattcatcatcctgtttcagctgctgatggtaaagatctgttctctgattttaatattttatcgttttgggcagCCTGAGCCAGAGTTCCGGCCACCAATGTCAGAAGTGGTGCAAGCACTGGTGCGGCTAGTCCAGCGGGCAAACATGAGCAAGAGAACCATTAGTAACGAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaaatatggatggaaaatgtttgtgcattcatgtgtttttatttttgggggcagCCGGAGCCAGAATTCCGACCACCAATGTCAGAAGTGGTTCAAGCACTGGTGCGATTAGTGCAGCGAGCTAACATGAGCAAGCGAACATTTAGTAGTAGTG
tttttattttt CT-rich tract
atgtgtttttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgtcagccacgttcccaaaaaattattttgtaaatatggatggaaaatgtttgtgcattcatgtgtttttatttttgggggcagCCGGAGCCAGAATTCCGACCACCAATGTCAGAAGTGGTTCAAGCACTGGTGCGATTAGTGCAGCGAGCTAACATGAGCAAGCGAACATTTAGTAGTAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG