Sequence
atgc intronic sequence ATGC exonic sequencegtttgcttcttttatcctttgggatttatggatatagaggtccatggagcctttcaaaaggtttttgtacctacatatctttcagGACTTAAAAAATGCGAAGTCAATTGTCGACTGGATTGCATGGGCTGAGCCGCAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTA
Basic information
species | Glycine max |
transcript | GLYMA17G24420.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G24420.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os06g48770.2 (Oryza sativa), 3'ss of exon 5
gtttgcttcttttatcctttgggatttatggatatagaggtccatggagcctttcaaaaggtttttgtacctacatatctttcagGACTTAAAAAATGCGAAGTCAATTGTCGACTGGATTGCATGGGCTGAGCCGCAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTA
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gtttgcctctatt--ctgaaaaaacggacttatgtaaaa---tgtgcaggattgctatatcatttt----cttaatgt-tgtcagGATTTGAAGAATGCAAAATCATTAGTTGAATGGATTGCATGGGCAGAGCCTCAATATAATTTTAACCCGATGATAGATGAATGGTGCAAGGAGGCACCAA
upper sequence: GLYMA17G24420.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G24810.2 (Arabidopsis thaliana), 3'ss of exon 5
-------------------------gtttgcttcttttatcctttgggatttatggatatagaggtccatggagcctttcaaaaggtttttgtacctacatatcttt-cagGACTTAAAAAATGCGAAGTCAATTGTCGACTGGATTGCATGGGCTGAGCCGCAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTA
|||| | | | ||| | || | | || || | || | | ||| |||| ||||||||||| ||||| ||||| ||||| ||||||||||| ||||| || || || || || |||||||| ||||| |||||||||||||| |||||||| |
gtctggtcttttttcgttttgaagcatttgatatgaacagtaagagctattagctattgtatgactgttcacacttctttcaacttgtcttctcttttcatttcttaacagGACTTAAAGAATGCAAAGTCCATTGTTGACTGGATTGCGTGGGCGGAACCACAGTACAATTTTAATCCCATGATAGATGAATGGTGCAAGGAAGCTCCAA
upper sequence: GLYMA17G24420.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0008g02740.t01 (Vitis vinifera), 3'ss of exon 4
---------------------------------gtttgcttcttttatcctttgggatt-tatggatatagag-gtcc----atggagcctttcaaaaggtttttgtacctac-atatctttcagGACTTAAAAAATGCGAAGTCAATTGTCGACTGGATTGCATGGGCTGAGCCGCAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTA
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gttttgcatgcttttggattttaagatgattgtgataggaagtaatatctgttgtcattatatggttgttgggcatcctatcaaaaaaaaaattatatggttgttgggcttactattggttgcagGACTTAAAGAATGCAAAGTCAATAGCTGACTGGATAGCATGGGCAGAACCACAATATGACTTCAACCCTATGATTGATGAATGGTGCAGAGAAGCACCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatatagaggtccatggagcctttcaaaaggtttttgtacctacatatctttcagGACTTAAAAAATGCGAAGTCAATTGTCGACTGGATTGCATGGGCTGAGCCGCAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTA
tatctttc CT-rich tract
tttcaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgcttcttttatcctttgggatttatggatatagaggtccatggagcctttcaaaaggtttttgtacctacatatctttcagGACTTAAAAAATGCGAAGTCAATTGTCGACTGGATTGCATGGGCTGAGCCGCAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC