Sequence
atgc intronic sequence ATGC exonic sequence...tttccactgactttctgctggtgttgaaatacaattactaaataagtgagactttgttagattgttattataatctgtattgtggctttttgcatttcagCTCTTAGGAAAGAGTAGCGGATTTCAAGTAGCCTCAACACATCGGCCATGCACCAAAGGGCTTTGGTTGTGGAGTGCACCTTTGAAGAAGACCGCTCTTG
Basic information
species | Glycine max |
transcript | GLYMA07G32290.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G32290.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os02g20410.1 (Oryza sativa), 3'ss of exon 1
tttccactgactttctgctggtgttgaaataca-attactaaataagtgagactttgttagattgttatta--taatctgtattgtggctttttgcatttcagCTCTTAGGAAAGAGTAGCGGATTTCAAGTAGCCTCAACACATCGGCCATGCACCAAAGGGCTTTGGTTGTGGAGTGCACCTTTGAAGAAGACCGCTCTTG
| | | | | | || | ||| | |||| ||| || | ||| |||| | ||||||| | | || | | | ||||| |||||| || ||||||||||||||||| || |||||||| |||||||| || |||||| |||||||||| || | || | || || ||||
-gcaaattcatatatatcaagattttgattacggagtactttatataccag--ctaattatcttgtcaaggagtaatctgctctatttctgtgtttttgacagCTTCTAGGAAGAAGCAGCGGATTTCAAGTAGCAAGCACCCATCGGCCCTGCACCAAGGGCCTTTGGATGTGGAGTGCCCCAATAAAAAGAACTGCACTTG
upper sequence: GLYMA07G32290.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G031053_T01 (Zea mays), 3'ss of exon 1
tttccactgactttctgctggtgttgaaatacaattacta-aataagtgagactttgttagattgttattataatctgtattgtggctttttgcatttcagCTCTTAGGAAAGAGTAGCGGATTTCAAGTAGCCTCAACACATCGGCCATGCACCAAAGGGCTTTGGTTGTGGAGTGCACCTTTGAAGAAGACCGCTCTTG
| ||| | || ||| | || | | || || | | | | ||||||| | | | || | | | | ||||| | || || |||| |||||||| || |||||||||||||| ||||||||||| |||||| |||||||||| |||||||||| || | ||| |
-tcatactcatactcagctttaatataagttgattttttatagtgcattattttttgttaatcctctgcatcagttgataaaatccatcctctatatgcagCTTCTTGGGCGAAGCGGCGGGTTTCAAGTGGCTTCAACACATCGGCCTTGCACCAAAGGACTTTGGATGTGGAGTGCGCCTTTGAAGAGAACTGGTCTGG
upper sequence: GLYMA07G32290.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G098129_T01 (Zea mays), 3'ss of exon 1
-tttccactgactttctgctggtgttgaaatacaattactaaataagtgagactttgttagattgttattataatctgt--attgtggctttttgcatttcagCTCTTAGGAAAGAGTAGCGGATTTCAAGTAGCCTCAACACATCGGCCATGCACCAAAGGGCTTTGGTTGTGGAGTGCACCTTTGAAGAAGACCGCTCTTG
| || | || | | | | | | | | | |||||| ||| | || | || | || | | | | |||| | || || ||||| |||||||| || ||||||||||| || ||||| || || |||||| |||||||| | |||||||||| || | | | |
tataccccatacctagctttaatataagttgatgttctttcatcgacgttatttttgtttaattctctgcatcacttgataaaattgacactctatgt---agCTTCTTGGGCGAAGCAGCGGTTTTCAAGTGGCTTCAACACATCGTCCTTGCACAAAGGGACTTTGGATGTGGAGTACGCCTTTGAAGAGAACTGGTTTGG
upper sequence: GLYMA07G32290.2 (Glycine max), 3'ss of exon 1
lower sequence: AT5G46070.1 (Arabidopsis thaliana), 3'ss of exon 1
tttccactgactttctgctggtgttgaaatacaattactaaataagtgagactt-tgttagattgt-tattataatctgtattgtggctttttgcattt-cagCTCTTAGGAAAGAGTAGCGGATTTCAAGTAGCCTCAACACATCGGCCATGCACCAAAGGGCTTTGGTTGTGGAGTGCACCTTTGAAGAAGACCGCTCTTG
|| | || | |||| || |||| | | | | | || |||| ||| | | ||| ||| |||||| || ||| ||| |||| | ||| |||| || ||||||||||| |||||||| ||| || ||||| |||||||||||||||||| | ||| | || | || |||||||
-ttatgtttgtttgat-ttggttctgtg-tacattgttttgaggtctagggtttatgtttctgtgtgtttcttaaattgttttgtggtgttgtgcgtttgtagCTTCTTGGACGCAGTAATGGGTTTCAAGTAGCATCAACACACAAGCCGTGTACCAAGGGGCTTTGGTTGTGGAGTTCTCCTATAAAAAGAACAGCTCTTG
upper sequence: GLYMA07G32290.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 1
tttccactgactttctgctggtgttgaaatacaattactaaataagtgagactttgttagattgttattataatctgtattg--tggctttttgcatttcagCTCTTAGGAAAGAGTAGCGGATTTCAAGTAGCCTCAACACATCGGCCATGCACCAAAGGGCTTTGGTTGTGGAGTGCACCTTTGAAGAAGACCGCTCTTG
| || ||| || | | | || | || | ||||| | ||| | || || | || || | | || |||| | || | |||||| || |||||||| || ||||| ||||||||||| ||||||||||||||||||||||| |||| || |||| || |||||||
--aagtgtacctctctcctcattctttcctgttatatatctgtacaaaatgttttgtgtcacatctataactatgtgcactgcttgcatgcatttgttgtagCTTCTTGGGAGGAGTAGTGGGTTTCAAGTTGCATCAACTCATCGGCCATGTACCAAAGGGCTTTGGTTGTGGAGCACACCCTTAAAGAGAACTGCTCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgagactttgttagattgttattataatctgtattgtggctttttgcatttcagCTCTTAGGAAAGAGTAGCGGATTTCAAGTAGCCTCAACACATCGGCCATGCACCAAAGGGCTTTGGTTGTGGAGTGCACCTTTGAAGAAGACCGCTCTTG
ctttttgc CT-rich tract
tttgttagattgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttccactgactttctgctggtgttgaaatacaattactaaataagtgagactttgttagattgttattataatctgtattgtggctttttgcatttcagCTCTTAGGAAAGAGTAGCGGATTTCAAGTAGCCTCAACACATCGGCCATGCACCAAAGGGCTTTGGTTGTGGAGTGCACCTTTGAAGAAGACCGCTCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG