Sequence
atgc intronic sequence ATGC exonic sequencegtaagatggaaatatattttttgatttgtggtttgcttccagtgtggaataccattaggtggattatttgtcttatttctatgaggctgtatcttgtttgtcagATGTTTACTCAACTGCGCTTCACATATGAACAAGAGAGTCATCCAGAGGAGTTTTTTATCCCATATGTCTGGCAGCTAGTTCTATCCCATTG
Basic information
species | Glycine max |
transcript | GLYMA20G28880.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G28880.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os01g56630.2 (Oryza sativa), 3'ss of exon 15
--------------------------------------------gtaagatggaaatatattttttgatttgtggtttgcttccagtgtggaataccattaggtggattatttgtcttatttctatgaggctgtatcttgtttgtcagATGTTTACTCAACTGCGCTTCACATATGAACAAGAGAGTCATCCAGAGGAGTTTTTTATCCCATATGTCTGGCAGCTAGTTCTATCCCATTG
| |||| | ||||| | || | | ||| | || | | ||||| ||| ||| ||| | ||||| |||||||||||| || | || || |||||||| ||||| |||||||| |||||||||||||||||||||| |||| | || ||||| | |
gtgatgcttataatacttagaaactgctgctttaaatggcagttctttgatgattgcacattttcttgttctttgagcacttgaaa----atattctggtgtccggattgattggcttgacaatatataatgat---ctgttt-tcagATGTTTACCCAGTTACGGTTTACATATGAGCAAGAAAGTCATCCTGAGGAGTTTTTTATCCCATATGCATGGCGCGTTGTCCTATCACGAGG
upper sequence: GLYMA20G28880.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G078576_T04 (Zea mays), 3'ss of exon 15
--gtaagatggaaatatattttttgatttgtggtttgcttccagtgtggaataccattaggtggattatttgtcttatttctatgaggctgtatcttgtttgtcagATGTTTACTCAACTGCGCTTCACATATGAACAAGAGAGTCATCCAGAGGAGTTTTTTATCCCATATGTCTGGCAGCTAGTTCTATCCCATTG
||| ||| || | || |||| || || | || || | || | | || ||| || | | ||| || | || ||| ||||||||||||||| |||| || |||||||| ||||| || || || ||||| || ||||||||||||| |||| || || || || | |
atctaaaatg-aattttaattttggacagagggagtatttatgatg-gcaagatattctggcaataagattgactga---caatgta-ctttgaattatttttcagATGTTTACTCAGTTGCGGTTTACATATGAGCAAGAAAGCCACCCTGAGGAATTCTTTATCCCATATGCATGGCGCCTTGTCCTGTCACGGGG
upper sequence: GLYMA20G28880.1 (Glycine max), 3'ss of exon 14
lower sequence: AT1G04200.1 (Arabidopsis thaliana), 3'ss of exon 15
----gtaagatggaaatatattttttgatttgtggtttgcttccagtgtggaataccattaggtggattatttgtcttatttctatgaggctgtatcttgtttgt-cagATGTTTACTCAACTGCGCTTCACATATGAACAAGAGAGTCATCCAGAGGAGTTTTTTATCCCATATGTCTGGCAGCTAGTTCTATCCCATTG
| || | | | |||| | | |||| ||| | | | || | | | | | ||||| | | | ||||| |||||||||||||| || | |||| |||||||||||||||| || || || ||||||||||| |||||||| ||||| |||| | | |||| ||
gtaagcaacctctacacatatccatcactgaaatatttgaatcctttcccggtagctatagttgttaaaagctcttatctttcttccacttttctttttgttaccgcagATGTTTACTCAGCTTCACTTCTCATATGAACAAGAGAGCCACCCGGAAGAGTTTTTTATTCCATATGTTTGGCAACTAGCTTTTTCCCGATG
upper sequence: GLYMA20G28880.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 15
gtaagatggaaatatattttttg-atttgtggtttgcttccagtgtggaataccattaggtggattatttgtcttatttc-tatgaggctgtatcttgtttgtcagATGTTTACTCAACTGCGCTTCACATATGAACAAGAGAGTCATCCAGAGGAGTTTTTTATCCCATATGTCTGGCAGCTAGTTCTATCCCATTG
|||| | | || | | || | | || ||| | | | | | |||| || | | |||| | | | || | | | ||||| ||||||||||| ||| | ||||||||||||||||||||||| |||||||||||||| |||||||| ||||| ||||||||||||||||||| ||
gtaaaaggcaattggttgttgagcaattacagtt-gttccaattaatgaatcttatctgaaaggttatgttccacttatcacgtaatataaatttccgtttgacagATGTTTACACAATTACGCTTCACATATGAACAAGAGAGCCATCCAGAGGAGTTCTTTATCCCCTATGTGTGGCAGCTAGTTCTATCCCGCTGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|209718187|gb|BW677445.1|BW677445EST: TCCAAGTCATAATTGTAAATTGTCGTTCTTGGAGGGGTGATGGAATGAAG ATGTTTACTCAACTGCGCTTCACATATGAACAAGAGAGTCATCCAGAGGAG
genomic: TCCAAGTCATAATTGTCAATTGTCGTTCTTGGAGGGGTGATGGAATGAAGgtaagatgga ... tgtttgtcagATGTTTACTCAACTGCGCTTCACATATGAACAAGAGAGTCATCCAGAGGAG
EST:
gi|9901403|gb|BE610371.1|BE610371EST: TCCAAGTCATAATTGTCAATTGTCGTTCTTGGAGGGGTGATGGAATGAAG ATGTTTACTCAACTGCGCTTCACATATGAACAAGAGAGTCATCCAGAGGAG
genomic: TCCAAGTCATAATTGTCAATTGTCGTTCTTGGAGGGGTGATGGAATGAAGgtaagatgga ... tgtttgtcagATGTTTACTCAACTGCGCTTCACATATGAACAAGAGAGTCATCCAGAGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taccattaggtggattatttgtcttatttctatgaggctgtatcttgtttgtcagATGTTTACTCAACTGCGCTTCACATATGAACAAGAGAGTCATCCAGAGGAGTTTTTTATCCCATATGTCTGGCAGCTAGTTCTATCCCATTG
tcttgttt CT-rich tract
attatttgtcttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagatggaaatatattttttgatttgtggtttgcttccagtgtggaataccattaggtggattatttgtcttatttctatgaggctgtatcttgtttgtcagATGTTTACTCAACTGCGCTTCACATATGAACAAGAGAGTCATCCAGAGGAGTTTTTTATCCCATATGTCTGGCAGCTAGTTCTATCCCATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT