Sequence
atgc intronic sequence ATGC exonic sequencegtttaatttctttactttctaatttttatttgttagaatttatttccttataaaaatatttatacagaaaaccttaataaacagtaaatataattgttaactttccattctcggttcctaattagatcatggatctagcaacttcctagcctttgtattttattttgttttaaaattttaatagGGATATTATCAAGCCTCGGCGAGGGAATTGATAAGGATCAATGGAACCACAAAAGCTCCAGTCATGAATTTTGCTGCTGAGACATCACTTGGGGTGGTTA
Basic information
species | Glycine max |
transcript | GLYMA08G20360.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G20360.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G21250.2 (Arabidopsis thaliana), 3'ss of exon 6
gtttaatttctttactttctaatttttatttgttagaatttatttccttataaaaatatttatacagaaaaccttaataaacagtaaatataattgttaactttccattctcggttcctaattagatcatggatctagcaacttcctagcctttgtattttattttgttttaaaattttaatagGGATATTATCAAGCCTCGGCGAGGGAATTGATAAGGATCAATGGAACCACAAAAGCTCCAGTCATGAATTTTGCTGCTGAGACATCACTTGGGGTGGTTA
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-----------------------------------------------------------------------------------------gtacatgattcgattctact-tctgtttttagttgttttatgcagcaaataagtctgta---ttaacatccgcttcttctttgaaa-----aaagGATTACTATTTAGCCTCTGCAAGGGAGCTGATTAGGATCAATGGAACAACCAAAGCTCCAGTGATGAATTATGCTGCAGAAACCTCACTTGGGGTGGTGA
upper sequence: GLYMA08G20360.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv09s0002g02440.t01 (Vitis vinifera), 3'ss of exon 5
gtttaatttctttactttctaatttttatttgttagaatttatttccttataaaaatatttatacagaaaaccttaataaacagtaaa--tataattgttaactttccattctcggttcctaattagatcatggatctagcaacttcctagcctttgtattttattttgttttaaaattttaatagGGATATTATCAAGCCTCGGCGAGGGAATTGATAAGGATCAATGGAACCACAAAAGCTCCAGTCATGAATTTTGCTGCTGAGACATCACTTGGGGTGGTTA
|| | | | | || || | || || | | || | | | || || || | || || | | || || || | | ||| |||| |||||| |||||| || || || | ||||||||||||||||| |||||||| || || |||| || ||| ||||||||||||||||| ||||| |
----------------------------------------------------------------------------gtagataatggggttctactttacattctttgatctctcacttattctttgctactagacataaaaatctgataaccatcctgtt----ttcattctga----ctaaaagGGGTATTATTTAGCCTCTGCAAGAGAGCTAATAAGGATCAATGGAACAACAAAAGCCCCCGTTATGAGTTATGCAGCTGAGACATCACTTGGAGTGGTCA
upper sequence: GLYMA08G20360.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv09s0002g02430.t01 (Vitis vinifera), 3'ss of exon 17
gtttaatttctttactttctaatttttatttgttagaatttatttccttataaaaatatttatacagaaaaccttaataaacagtaaatataattgttaactttccattctcggttcctaattagatcatggatctagcaacttcctagcctttgtattttattttgttttaaaattttaatagGGATATTATCAAGCCTCGGCGAGGGAATTGATAAGGATCAATGGAACCACAAAAGCTCCAGTCATGAATTTTGCTGCTGAGACATCACTTGGGGTGGTTA
| | | || | || | | | || | | || || ||||| || ||||| || | || || | || ||| | |||| ||| | ||| |||| |||||| |||||| || || || | ||||||||||||||||| ||||||||||| || ||||||| ||| ||||||||||||||||| ||||| |
------------------------------------------------------------------gtagatactattttttagcatacgtgctt-tgatctctctattcttctttgctaat--------agacacacaaaaatctga---ttattatctcgttttccttttga---ctaaaagGGGTATTATTTAGCCTCTGCAAGAGAGCTAATAAGGATCAATGGAACGACAAAAGCTCCTGTTATGAATTATGCAGCTGAGACATCACTTGGAGTGGTCA
upper sequence: GLYMA08G20360.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv09s0002g02430.t01 (Vitis vinifera), 3'ss of exon 6
gtttaatttctttactttctaatttttatttgttagaatttatttccttataaaaatatttatacagaaaaccttaataaacagtaaata-taattgttaactttccattc-tcggttcctaattagatcatggatcta-gcaacttcctagcctttgtattttattttgttttaaaattttaatagGGATATTATCAAGCCTCGGCGAGGGAATTGATAAGGATCAATGGAACCACAAAAGCTCCAGTCATGAATTTTGCTGCTGAGACATCACTTGGGGTGGTTA
||| ||| | ||| | ||||| ||||| | ||| || | | | | | ||| || | || || |||| ||| | ||| |||| |||||| |||||| || ||||| | |||||||||||||| || ||||||||||| || ||||||| ||| || ||| |||| ||||| ||||| |
-----------------------------------------------------------------------------------gtagataatgatttcttactttacattccttggtctctcttcttcttcttcactaatacaaagcaaaagtccgattacattgttttccttttga---ctaaaagGGGTATTATTTAGCCTCTGCAAGGGAGCTAATAAGGATCAATGGTACAACAAAAGCTCCTGTAATGAATTATGCAGCCGAGTCATCCCTTGGAGTGGTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggatctagcaacttcctagcctttgtattttattttgttttaaaattttaatagGGATATTATCAAGCCTCGGCGAGGGAATTGATAAGGATCAATGGAACCACAAAAGCTCCAGTCATGAATTTTGCTGCTGAGACATCACTTGGGGTGGTTA
tagcctttgtatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttaatttctttactttctaatttttatttgttagaatttatttccttataaaaatatttatacagaaaaccttaataaacagtaaatataattgttaactttccattctcggttcctaattagatcatggatctagcaacttcctagcctttgtattttattttgttttaaaattttaatagGGATATTATCAAGCCTCGGCGAGGGAATTGATAAGGATCAATGGAACCACAAAAGCTCCAGTCATGAATTTTGCTGCTGAGACATCACTTGGGGTGGTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT