Sequence
atgc intronic sequence ATGC exonic sequence...gatatattggatgtttatttgtatttgtatgggtaatacataattattcactgtagtacttgtgtgttccttcaataaacttatatttttttctcgctagGTCATGGCATTGATTGCTTACTTGATGGAATTTAAAGGAAACTATGGCCCACATCTTATAATAGTCCCAAATGCTGTTTTGGTCAACTGGAAG
Basic information
species | Glycine max |
transcript | GLYMA07G07550.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G07550.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g02290.1 (Oryza sativa), 3'ss of exon 6
--------------------------------------gatatattg-gatgtttatttgtatttgtatgggtaatacataattattcactgtagtacttgtgtgttccttcaataaacttatatttttttctcgctagGTCATGGCATTGATTGCTTACTTGATGGAATTTAAAGGAAACTATGGCCCACATCTTATAATAGTCCCAAATGCTGTTTTGGTCAACTGGAAG
| ||| | || ||| || |||| | | ||| || | || || || || | | ||| | ||||| ||| | ||||||| |||||||||||||||||||| || ||||| |||||||| ||||| || || |||||||| |||||||||||||||
gtgtggatttcttattccgttctacctgctagacttttgctatttcacaatattttcttttattatctcatttgcctccccatttccttttgccctgctagtaacatctttttgtggccaccaattgaata---aatagGTTATGTCTCTGATTGCATACTTGATGGAATTTAAAGGGAATTATGGACCACATCTCATAATTGTACCGAATGCTGTCTTGGTCAACTGGAAG
upper sequence: GLYMA07G07550.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G163849_T01 (Zea mays), 3'ss of exon 6
------------------------------gatatattggatgtttatt---tgtatttgtatgggtaatacataat-tattcactgtagtacttgt--gtgttccttcaataaacttatatt-tttttctcgctagGTCATGGCATTGATTGCTTACTTGATGGAATTTAAAGGAAACTATGGCCCACATCTTATAATAGTCCCAAATGCTGTTTTGGTCAACTGGAAG
|| | | || || | | || ||| | ||| | | | | |||| | | | | | | | || ||| | ||| | ||||||||||||||| |||| ||| |||||||||||||||| || |||||||| ||||| |||||||| ||||||||||| || ||||| ||||||
gtcattccttgcttattcttgtttactttctgtactcctgttattcatgatattttttattatcgtcaatgcttcctcttttcattcgaccaatggccaggaacttatttgtatgtctatgctatttgttgtaatagGTCATGGCATTGGTTGCGTACCTGATGGAATTTAAAGGGAATTATGGCCCTCATCTCATAATAGTGCCAAATGCTGTCTTAGTCAATTGGAAG
upper sequence: GLYMA07G07550.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G46020.1 (Arabidopsis thaliana), 3'ss of exon 6
gatatattggatgtttatttgtatttgtatgggtaatacataattattcactgt------------agtacttgtgtgttccttcaataaacttatatttttttctcgctagGTCATGGCATTGATTGCTTACTTGATGGAATTTAAAGGAAACTATGGCCCACATCTTATAATAGTCCCAAATGCTGTTTTGGTCAACTGGAAG
| || || | | ||||| | | | | | | | ||| | | | | || | | |||| |||| | || || ||| | |||| |||||| ||||||||||| | ||||| |||||||| || ||||| || ||||| || || || || ||||||||| |||| || ||||||
gttaaatctgttcccgatttgcagggattcctggatttacttttctttcgcctttggtgaccaataaattattatattgtcctatcataatatactaattgttttgtac-agGTAATGGCACTGATTGCTTACCTTATGGAGTTTAAAGGGAATTATGGACCGCATCTCATCATCGTTCCCAATGCTGTTCTGGTGAATTGGAAG
upper sequence: GLYMA07G07550.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv15s0046g02290.t01 (Vitis vinifera), 3'ss of exon 6
--gatatattggatgtttatt-tgtatttgtatgggtaatacataattattcactgtagtacttgtgtgttccttcaataaacttatatttttttctcgc-tagGTCATGGCATTGATTGCTTACTTGATGGAATTTAAAGGAAACTATGGCCCACATCTTATAATAGTCCCAAATGCTGTTTTGGTCAACTGGAAG
|| | || || || || || | | || | |||| | | || | || | ||| | || | | ||| ||| | | |||| |||||||| |||||||| |||||||| || |||||||||||||| ||||||||||| || || || ||||||||| |||| |||||||||
gtgaatttctgcatattccttatggcatactgcaactactttcaaattttatgtt-taacaattaagggtttgtgcagtgtttgattgtttctttattggacagGTAATGGCATTAATTGCTTATTTGATGGAGTTCAAAGGAAACTATGGTCCACATCTTATTATTGTTCCTAATGCTGTTCTGGTAAACTGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcactgtagtacttgtgtgttccttcaataaacttatatttttttctcgctagGTCATGGCATTGATTGCTTACTTGATGGAATTTAAAGGAAACTATGGCCCACATCTTATAATAGTCCCAAATGCTGTTTTGGTCAACTGGAAG
cttatatttttttctc CT-rich tract
ttcaataaacttatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatatattggatgtttatttgtatttgtatgggtaatacataattattcactgtagtacttgtgtgttccttcaataaacttatatttttttctcgctagGTCATGGCATTGATTGCTTACTTGATGGAATTTAAAGGAAACTATGGCCCACATCTTATAATAGTCCCAAATGCTGTTTTGGTCAACTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - -tggatgt
- - - - - - - - - - - - -tgtatgg
- - - - - - - - - - - - - - - - - - - - - - - - cactgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -acttgtg