Sequence
atgc intronic sequence ATGC exonic sequence...ttttcacatggtaactcatcactacatgttcacaatttatgtttgtatgcgtttgtgagtatttccattgtcttagcacacaaaaataaaatgatttcagGTTTCGCGCCACCTGTTTAAATGGACCAAAGAAGTCTCTTATGCAGACTATTACGAACGTGCCTTGACCAATGGTGTGCTCAGCATTCAAAGAGGAACCG
Basic information
species | Glycine max |
transcript | GLYMA11G14000.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G14000.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G12950.1 (Arabidopsis thaliana), 3'ss of exon 7
ttttcacatggtaactcatcactacatgttcacaatttatgtttgtatgcgtttgtgagtatttccattgtcttagcaca-caaaaataaaatgatttcagGTTTCGCGCCACCTGTTTAAATGGACCAAAGAAGTCTCTTATGCAGACTATTACGAACGTGCCTTGACCAATGGTGTGCTCAGCATTCAAAGAGGAACCG
|| || | ||| | | | |||| | ||| || || | ||| | | | ||||||||| || | | ||||| | |||||| ||||| || ||||||||||||||||| || ||||||||||| || ||| | | |||||||||||||||
--------------------gtaggattttaaacttttccccctctttctatttgctcaaggtaacat---actaacatatcaacacttgtacaatttcagGTCTCTAGGAATCTGTTCAGATGGACAAAAGAGGTTAGCTATGCAGACTATTACGAGCGCGCCTTGACCAACGGCGTGTTGGGAATTCAAAGAGGAACCC
upper sequence: GLYMA11G14000.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G12960.1 (Arabidopsis thaliana), 3'ss of exon 7
ttttcacatggtaactcatcactacatgttcacaatttatgtttgtatgcgtttgtgagtatttccattgtcttagcacacaaaaa-taaaatgatttcagGTTTCGCGCCACCTGTTTAAATGGACCAAAGAAGTCTCTTATGCAGACTATTACGAACGTGCCTTGACCAATGGTGTGCTCAGCATTCAAAGAGGAACCG
| | | || | | | | | | | |||| | | | || || | | | | | ||||||||| || | | ||||| | |||||| ||||| || ||||||||||||||||| || || |||||||| ||||||||| | ||||||||||||||||
---------------gtaggatttcaaacttcc---ccacacccccacccccctcttttcatttgc-tcaacgtaacatattgacacttgtacaatttcagGTCTCTAGGAATCTGTTCAGATGGACAAAAGAGGTTAGCTATGCAGACTATTACGAGCGCGCTTTGACCAACGGTGTGCTCGGAATTCAAAGAGGAACCG
upper sequence: GLYMA11G14000.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 7
ttttcacatggtaactcatcactacatgttcacaatttatgtttgtatgcgtttgtgagtatttccattgtcttagcacacaaaaataaaat-gatttc--agGTTTCGCGCCACCTGTTTAAATGGACCAAAGAAGTCTCTTATGCAGACTATTACGAACGTGCCTTGACCAATGGTGTGCTCAGCATTCAAAGAGGAACCG
|||| | | ||| | || | | | |||| | ||| ||| | ||| || | | | || ||||| | | | ||||| |||||||||||||||| |||| ||||||||||||||| |||||||| ||||| || || ||| |||| |||||||| | ||||| ||||||||||| |
tttttat-tatgaacgtgtagctcaagg--cgtgatttttatttatatcaccataaaagtcttctcttcattttcaaggacaaactgacatttgattttgtagGTTTCGCGCCACCTCTTTAGATGGACCAAAGAAGTGGTATATGCAGATTATTATGAGCGCGCCCTGACAAATGGTGTTTTGAGCATCCAAAGAGGAACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgcgtttgtgagtatttccattgtcttagcacacaaaaataaaatgatttcagGTTTCGCGCCACCTGTTTAAATGGACCAAAGAAGTCTCTTATGCAGACTATTACGAACGTGCCTTGACCAATGGTGTGCTCAGCATTCAAAGAGGAACCG
acaaaaataaaatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttcacatggtaactcatcactacatgttcacaatttatgtttgtatgcgtttgtgagtatttccattgtcttagcacacaaaaataaaatgatttcagGTTTCGCGCCACCTGTTTAAATGGACCAAAGAAGTCTCTTATGCAGACTATTACGAACGTGCCTTGACCAATGGTGTGCTCAGCATTCAAAGAGGAACCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - cacatgg
- - - - - - - - - - - - catgttc
- - - - - - - - - - - - - - - - - - - - - -tgtatgc
- - - - - - - - - - - - - - - - - - - - - - - - - gtttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataaa