Sequence
atgc intronic sequence ATGC exonic sequence...tttgtttcttgactaaatacattctgaagaatttgaatatattcagttattctctgccattttcttacaacttttaattgggttctctcacaatctgcagGACATTCAAGAGGCTCATGCTGGGCAAATAGTTGCTGTATTTGGTGTCGACTGTGCATCAG
Basic information
species | Glycine max |
transcript | GLYMA11G16460.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G45332.1 (Arabidopsis thaliana), 3'ss of exon 9
tttgtttcttgactaaatacattctgaagaatttgaatatattcagttattctctgccattttcttacaactt---ttaattgggttctctca---caatctgcagGACATTCAAGAGGCTCATGCTGGGCAAATAGTTGCTGTATTTGGTGTCGACTGTGCATCAG
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gttagttgaagtttatttttctccttaaga-ttccattatggtagctccgtggtggcaactctagtgccatgtggctgaattctatttttttaattctattttcagGATATTCAAGAGGCACATGCTGGACAAATCGTAGCTGTGTTTGGTATTGAGTGTGCATCAG
upper sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 9
--tttgtttcttgactaaatacattctgaagaatttgaatatattcagttattctctgcc-attttcttacaacttttaattgggttctctcacaatctgcagGACATTCAAGAGGCTCATGCTGGGCAAATAGTTGCTGTATTTGGTGTCGACTGTGCATCAG
|||||||| ||| | || ||| | | | ||| || | | || || ||| ||| ||| | || | | | ||| ||||||||||||||||| ||||||||||||||||||||||| || ||||| || ||||| ||||
ttattgtttctcc-taaaacttgatttgttgaactccagtgagctcattttccttttccctgggttattatttggtttgatttgattttt--aaattctacagGACATTCAAGAGGCCCATGCTGGGCAAATAGTTGCTGTCTTCGGTGTTGATTGTGCTTCAG
upper sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S20_94V6.1 (Physcomitrella patens), 3'ss of exon 8
------------------------------------------------------------tttgtttcttgactaaat-----acattctgaagaatttgaatatattcagttattctc------tgccattttcttacaac----ttttaattgggttct--ctcacaatctgc-------------agGACATTCAAGAGGCTCATGCTGGGCAAATAGTTGCTGTATTTGGTGTCGACTGTGCATCAG---------------------------------------
| | | | |||| ||| | || || | ||| | | | |||| | | ||| || | |||| | || | || || || ||| ||||| |||||||||||||||| |||||||| |||| ||||| || |||||||| || ||| | || |
gttagtctgaatctctctccttgtccttttttttgtttctgttttgtttttgtgggttggtgtatcttttgaaagaatgatcaaacttatgctgcttttaggtttctaaagttgtgttgctggcgtgctgttgtgctacaccgtagttattatcatgtctctacttacattctgcggagttgtatttcagGACATTCAAGAGGCACATGCTGGAGAAATTGTTGCAGTCTTTGGTGTTGAGTGTTCTTCTGGTGATACTTTTACGGACGGATCTGTGAAGTTTACGATGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttattctctgccattttcttacaacttttaattgggttctctcacaatctgcagGACATTCAAGAGGCTCATGCTGGGCAAATAGTTGCTGTATTTGGTGTCGACTGTGCATCAG
ttctctcac CT-rich tract
attttcttacaacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgtttcttgactaaatacattctgaagaatttgaatatattcagttattctctgccattttcttacaacttttaattgggttctctcacaatctgcagGACATTCAAGAGGCTCATGCTGGGCAAATAGTTGCTGTATTTGGTGTCGACTGTGCATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - -cattctg