Sequence
atgc intronic sequence ATGC exonic sequencegtttattatccttgacatttctcttcgtggtttagattttcacctgagctggtcttctttacaagatacacctgatgcactctttatttctagtagGTACCTGTTGATGTTTTTGAAGGAATTACTGATGAAGATGCTGCAAAGGTTGTTGATGGTTTGGCTCTCAAAGTGGCTGATAGAAATAAGTCGATTGAAC
Basic information
species | Glycine max |
transcript | GLYMA13G18730.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G18730.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G20420.1 (Arabidopsis thaliana), 3'ss of exon 6
---------gttta--ttatccttgacatttctcttcgtggtttagattttcacctgagctggtcttctttacaagat----acacctgatgcactctttatttctagtagGTACCTGTTGATGTTTTTGAAGGAATTACTGATGAAGATGCTGCAAAGGTTGTTGATGGTTTGGCTCTCAAAGTGGCTGATAGAAATAAGTCGATTGAAC
|||| | | ||| | | || | || | ||||| | | | | | | | |||||| | | || | ||| ||||||||| ||||||| |||| |||||| ||||||||||||||||| |||||||| |||||| |||||| ||||| ||||| ||||| | ||||||||||
gttgttactgtttgattcgtatttggtggtctgatctccagt--aaatatcattctgagattctttctcatgcgggtttttgacacctca---agtcatggttttgcgtagGTACCAATTGATGTATTTGCAGGAATCACTGATGAAGATGCTGCTAAGGTTGTGGATGGTCTGGCTCCCAAAGCTGCTGACAGAAAAGATTCGATTGAAC
upper sequence: GLYMA13G18730.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv07s0005g03790.t01 (Vitis vinifera), 3'ss of exon 6
gtttattatccttgacatttc-tcttcgtggtttagattttcacctgagctggt--cttctttacaagat------------acacctgatgcactctttatttctagt-agGTACCTGTTGATGTTTTTGAAGGAATTACTGATGAAGATGCTGCAAAGGTTGTTGATGGTTTGGCTCTCAAAGTGGCTGATAGAAATAAGTCGATTGAAC
||||| ||| | || | ||| || ||| || | |||| || ||||||||| | ||| ||| ||| ||||||||| | |||||||| ||||||||||| |||||||||| |||||||||||||| |||||||| ||||||||||||| ||| ||||| ||||||||| ||||| || |
-gttattgtccccaatgctttattttcatgctttgacattgctattgagacagtttcttctttaccctgttatattgttaaaacagttgactcaccatttatttctgatcagGTACCTATTGATGTTTTTCAAGGAATTACAGATGAAGATGCTGCTAAGGTTGTAGATGGTTTGGCTCCCAAGGTGGCAGATAGAAATGCTTCGATAGAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acctgagctggtcttctttacaagatacacctgatgcactctttatttctagtagGTACCTGTTGATGTTTTTGAAGGAATTACTGATGAAGATGCTGCAAAGGTTGTTGATGGTTTGGCTCTCAAAGTGGCTGATAGAAATAAGTCGATTGAAC
acctgat putative branch site (score: 4)
cactctttatttct CT-rich tract
tttatttcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttattatccttgacatttctcttcgtggtttagattttcacctgagctggtcttctttacaagatacacctgatgcactctttatttctagtagGTACCTGTTGATGTTTTTGAAGGAATTACTGATGAAGATGCTGCAAAGGTTGTTGATGGTTTGGCTCTCAAAGTGGCTGATAGAAATAAGTCGATTGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT