Sequence
atgc intronic sequence ATGC exonic sequencegttagtgtaatttttctgtaagtgttgcgttattgtttcaacataagattgttttctgttgacatgagattcatctaacattgtatttagATTAACAACAATTTGCGCTGCTATGACCTTGCAATGGAGCTAAGTAATAGCACCATAGAAGCCCTTCCACAGAACTACGCTGAGCAG
Basic information
species | Glycine max |
transcript | GLYMA03G03120.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 17
lower sequence: AT1G71820.2 (Arabidopsis thaliana), 3'ss of exon 17
gttagtgtaatttttctgtaagtgttgcgttattgttt-caacataagattgttttctgttgacatgag-attcat---ctaacattgtatttagATTAACAACAATTTGCGCTGCTATGACCTTGCAATGGAGCTAAGTAATAGCACCATAGAAGCCCTTCCACAGAACTACGCTGAGCAG
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---------gtatgtcaaaagatatgactcttttgatgacactatttctttctcccattttcagacgaatatttatatgttaatattgactacagATAAACAACAACCTTCGCTGCTACGACCTTGCCATGGAGTTAAGTAATAGCACTTTAGAAGCTCTTCCACAAAATTATGCAGAGCAG
upper sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 16
---------gttagtgtaatttttctgtaagtgttgcgttattgtttcaacataagattgttttctgttgacatgagattcatctaacattgtatttagATTAACAACAATTTGCGCTGCTATGACCTTGCAATGGAGCTAAGTAATAGCACCATAGAAGCCCTTCCACAGAACTACGCTGAGCAG
| || || ||| | | | | | ||| || | | ||| | | | | | || | ||||||||| |||||||||||||| | ||||||||||| || ||| ||||||| |||| |||||| | ||||| ||||||||||| || |||||||||
gtttgtctctcttaaacaagttccatgtgactctatc--tcttggttttctactaaattaagtcaccatttctttactgctat-tgacattgtatccagATTAACAACAATCTACGCTGCTATGATCTAGCATTGGAGCTGAGTAGCAGCACCTTGGAAGCTCTTCCACAGAATTATGCTGAGCAG
upper sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 16
gttagtgtaatttttctgtaagtgttgcgttattgtttcaacataagattgttttctgttga--catgagattcat-------ctaacattgtatttagATTAACAACAATTTGCGCTGCTATGACCTTGCAATGGAGCTAAGTAATAGCACCATAGAAGCCCTTCCACAGAACTACGCTGAGCAG
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gtt--tgtctctcttaaacaagttccacgtgactctatct-cttggttttctactaaattaagtcaccaattctttactgctattgacattgtatccagATTAACAACAATCTACGCTGCTATGATCTAGCATTGGAGCTGAGTAGCAGCACCTTGGAAGCTCTTCCACAGAATTATGCTGAGCAGMapped 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|14990484|gb|BI316157.1|BI316157EST: GACTAGAAGAACCAGCTTCTGAAATTGGTCTGGAACCTTTATGTGCTATG ATTAACAACAATTTGCGCTGCTATGACCTTGCAATGGAGCTAAGTAATAGC
genomic: GACTAGAAGAACCAGCTTCTGAAATTGGTCTGGAACCTTTATGTGCTATGgttagtgtaa ... ttgtatttagATTAACAACAATTTGCGCTGCTATGACCTTGCAATGGAGCTAAGTAATAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcaacataagattgttttctgttgacatgagattcatctaacattgtatttagATTAACAACAATTTGCGCTGCTATGACCTTGCAATGGAGCTAAGTAATAGCACCATAGAAGCCCTTCCACAGAACTACGCTGAGCAG
atctaac putative branch site (score: 2)
taacattgtattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtgtaatttttctgtaagtgttgcgttattgtttcaacataagattgttttctgttgacatgagattcatctaacattgtatttagATTAACAACAATTTGCGCTGCTATGACCTTGCAATGGAGCTAAGTAATAGCACCATAGAAGCCCTTCCACAGAACTACGCTGAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG