Sequence
atgc intronic sequence ATGC exonic sequence...ctatatgaagaaaggagtttattctgactttttcaaaagatggtttgcattggatactttaagttgtgatggttctgataacaggaattctcttttgtagGTTGCAAAAAGTGGTTCAGTTAAAGTGGAAAAGCTTATGAATATTGAGCGATATTCCCATGTCATGCACATAAGCTCAACG
Basic information
species | Glycine max |
transcript | GLYMA18G03260.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G03260.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g61120.1 (Oryza sativa), 3'ss of exon 8
ctatatgaagaaaggagtt--tattctgactt-tttcaaaagatggttt-gcattggatactttaagttgtgatggttctgataacaggaattctcttttgtagGTTGCAAAAAGTGGTTCAGTTAAAGTGGAAAAGCTTATGAATATTGAGCGATATTCCCATGTCATGCACATAAGCTCAACG
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----gttgagcatcctgttgctattataattggcttcattacatttctgagttctgacttcatctagtctgatctgtgataaacttttgccttttttttttcagGTGTCCAAACCAGGTTCAGTAAAGGTGGAGAAACTGATGAACGTTGAACGATATTCACATGTCATGCACATTAGCTCAACA
upper sequence: GLYMA18G03260.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G003109_T01 (Zea mays), 3'ss of exon 8
------ctata-tgaagaaaggagtttattctgactttttcaaaagatggtttgcattggatactttaagttgtgatggttctgataacaggaattc-tcttttgt--agGTTGCAAAAAGTGGTTCAGTTAAAGTGGAAAAGCTTATGAATATTGAGCGATATTCCCATGTCATGCACATAAGCTCAACG
||||| | ||||| ||| || | |||| | || ||| | | | || |||| | ||||| | || | || | ||| |||| | ||| |||||||| || ||||| || | ||||||||||| |||||||| |||||||||||||| ||||||||
gtcgcactatagttcagaaaaaagtcggttttatgtttt---------gtttgttattacaca-tctatcttgtttcatctatgatataataaacttgtcgtgtgtacagGTCTCCAAACCAGGTTCAGTAAAGGTGGAGAAATTGATGAATATTGAACGATATTCTCATGTCATGCACATCAGCTCAACC
upper sequence: GLYMA18G03260.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G55870.1 (Arabidopsis thaliana), 3'ss of exon 8
-------------------------------------------------------------------------------ctatatgaagaaaggagtttattctgactttttcaaaagatggtttgcatt-ggatactttaagttgtgatggttctgataa-------caggaattctcttttgtagGTTGCAAAAAGTGGTTCAGTTAAAGTGGAAAAGCTTATGAATATTGAGCGATATTCCCATGTCATGCACATAAGCTCAACG
|| | | | || | || || |||| || || ||| | | | | |||| ||| || | || | |||| | || | || ||||| ||||| |||| ||| |||||||| ||||| ||||| ||||||||||| || |||||||||
gttagtctgtttctcaggatcaaatctggtttatatattcttggtttaagcaatgatgaaaaacgatcaatgatcattaacttacgtacttctatgccaatcttttctcttacaaagaatatttcaaatttgaacatatagtattgtctaatatctcattggctctctctgggccttatgaaaccagGTGTCCAAGAACGGCTCAGTGAAAGTAGAAAGGCTCATGAATATAGAGCGTTATTCTCATGTCATGCATATTAGCTCAACG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcattggatactttaagttgtgatggttctgataacaggaattctcttttgtagGTTGCAAAAAGTGGTTCAGTTAAAGTGGAAAAGCTTATGAATATTGAGCGATATTCCCATGTCATGCACATAAGCTCAACG
tgataac putative branch site (score: 2)
ttctcttttgt putative PPT
atactttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctatatgaagaaaggagtttattctgactttttcaaaagatggtttgcattggatactttaagttgtgatggttctgataacaggaattctcttttgtagGTTGCAAAAAGTGGTTCAGTTAAAGTGGAAAAGCTTATGAATATTGAGCGATATTCCCATGTCATGCACATAAGCTCAACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- -tatgaag
- - - - - - - - - - -ttctgac
- - - - - - - - - - - - - - - - - - - gatggtt
- - - - - - - - - - - - - - - - - - - - - - -tgcattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgatgg