Sequence
atgc intronic sequence ATGC exonic sequencegtttaccaactttcttatttttctgtttcccgcccctgcttagatcacagagctagaactttcttaatctttttttccccctaaaagGGATATTATCAAGCCTCATCAAGGGAATTAATGCGGATCAATGGAACCACAAAAGCTCCTGTCATGAATTTTGCAGCTGAGACATCACTTGGTGTGGTTA
Basic information
species | Glycine max |
transcript | GLYMA07G01380.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G01380.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv09s0002g02440.t01 (Vitis vinifera), 3'ss of exon 5
---------gtttaccaactttcttatttttctgtttcccgcccctgcttagatcacagagctagaactttcttaatc-------tttttttccccctaaaagGGATATTATCAAGCCTCATCAAGGGAATTAATGCGGATCAATGGAACCACAAAAGCTCCTGTCATGAATTTTGCAGCTGAGACATCACTTGGTGTGGTTA
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gtagataatggggttctactttac-attctttgatctctcacttattctttgctactagacataaaaatctgataaccatcctgttttcattctgactaaaagGGGTATTATTTAGCCTCTGCAAGAGAGCTAATAAGGATCAATGGAACAACAAAAGCCCCCGTTATGAGTTATGCAGCTGAGACATCACTTGGAGTGGTCA
upper sequence: GLYMA07G01380.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv09s0002g02430.t01 (Vitis vinifera), 3'ss of exon 17
------------gtttacca-actttctt--atttttctgtttcccgcccctgcttagatcacagagctagaact-ttcttaatctttttttccccctaaaagGGATATTATCAAGCCTCATCAAGGGAATTAATGCGGATCAATGGAACCACAAAAGCTCCTGTCATGAATTTTGCAGCTGAGACATCACTTGGTGTGGTTA
|||| || || | ||| || | ||| || | || | |||| | | | | || | ||| || ||||||||| |||||| |||||| |||| || |||| ||||||||||||| |||||||||||||| ||||||| ||||||||||||||||||||| ||||| |
gtagatactattttttagcatacgtgctttgatctctctattcttctttgctaatagacacacaaaaatctgattattatctcgttttccttttgactaaaagGGGTATTATTTAGCCTCTGCAAGAGAGCTAATAAGGATCAATGGAACGACAAAAGCTCCTGTTATGAATTATGCAGCTGAGACATCACTTGGAGTGGTCA
upper sequence: GLYMA07G01380.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv09s0002g02430.t01 (Vitis vinifera), 3'ss of exon 6
---------gtttaccaactttcttatttttctgtttcccgcccctgcttagat--cacagagctagaactttcttaatctttttttcccc---ctaaaagGGATATTATCAAGCCTCATCAAGGGAATTAATGCGGATCAATGGAACCACAAAAGCTCCTGTCATGAATTTTGCAGCTGAGACATCACTTGGTGTGGTTA
| || | ||||| | || | | | || ||| | ||| ||| | | ||| | |||| | ||||||||| |||||| |||||| ||||||| |||| |||||||||| || |||||||||||||| ||||||| |||||| ||| |||| ||||| ||||| |
gtagataatgatttcttactttacattccttggtctctcttcttcttcttcactaatacaaagcaaaagtccgattacattgttttccttttgactaaaagGGGTATTATTTAGCCTCTGCAAGGGAGCTAATAAGGATCAATGGTACAACAAAAGCTCCTGTAATGAATTATGCAGCCGAGTCATCCCTTGGAGTGGTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cccctgcttagatcacagagctagaactttcttaatctttttttccccctaaaagGGATATTATCAAGCCTCATCAAGGGAATTAATGCGGATCAATGGAACCACAAAAGCTCCTGTCATGAATTTTGCAGCTGAGACATCACTTGGTGTGGTTA
tcttaat putative branch site (score: 3)
ctttcttaatcttttt CT-rich tract
tttcttaatctttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttaccaactttcttatttttctgtttcccgcccctgcttagatcacagagctagaactttcttaatctttttttccccctaaaagGGATATTATCAAGCCTCATCAAGGGAATTAATGCGGATCAATGGAACCACAAAAGCTCCTGTCATGAATTTTGCAGCTGAGACATCACTTGGTGTGGTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA