Sequence
atgc intronic sequence ATGC exonic sequencegtgctgattatccaatttgcttgctttcttgtactcgctcacaaattgctgtgcttatgtttattatacaatgcagACCTAGGGCCATTCTGGACATCATCAAATCAGGGGAGAATTTCAGGATTTCTACTAGTACCAAGATGCCAGAGCAGGGAACATGCGAACGCTGCGGTTAT
Basic information
species | Glycine max |
transcript | GLYMA04G00350.3 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G00350.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g52470.2 (Oryza sativa), 3'ss of exon 9
----------------------------------------------------------------------------------gtgctgattatccaatttgcttgct-ttcttgtactcgctcacaaattgctgtgcttatgtttattat--acaatgcagACCTAGGGCCATTCTGGACATCATCAAATCAGGGGAGAATTTCAGGATTTCTACTAGTACCAAGATGCCAGAGCAGGGAACATGCGAACGCTGCGGTTAT
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gtaaaggcttctgttgtccaaaggaatgatcattatttttacatttgtgtttggtcatttcttggtaatgctttgtcatccagaagagagaagcctatttcttccttgcttctgaagttttttttttaatcttgaactta-gtaaattatgaatggtgcagACCTAGAGCTATACTGGACATCATAAAATCAGGTGAGAATTTTAGGATCTCCACAACAACAAGGATGCCAGAGCAAGGAACATGTGAACGTTGCGGCTAC
upper sequence: GLYMA04G00350.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g41565.1 (Oryza sativa), 3'ss of exon 8
---------------------------------------------------------------------------------------gtgctgattatccaatttgcttgctttcttgtactcgctcacaaattgctgtgcttatgtttattata--caatgcagACCTAGGGCCATTCTGGACATCATCAAATCAGGGGAGAATTTCAGGATTTCTACTAGTACCAAGATGCCAGAGCAGGGAACATGCGAACGCTGCGGTTAT
| || | || |||| | | | ||| | | | | || |||| || ||||| ||||||||||| || || ||||||||||| |||||||| |||||||| ||||| || || | || | |||||||||||| |||||||| ||||| || || ||
gtaaaggcttctgttgtccaaaggaatgatcattatttttccatttgtgtttggtcatttgttggtaaatactagctttgtcatccagaagagagaagcctatttcttgcttctgcagtattttttttttatct--tgaactta-gtaaattatgattggtgcagACCTAGAGCTATACTGGACATCATAAAATCAGGTGAGAATTTTAGGATCTCCACAACAACAAGGATGCCAGAGCAAGGAACATGTGAACGTTGTGGCTACMapped 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|193556231|gb|FK511454.1|FK511454EST: GCATATCGAGGTTTTGCTCGCGAGTTCATCAAAGATTTGGAGAGAATCAG ACCTAGGGCCATTCTGGACATCATCAAATCAGGGGAGAATTTCAGGATTTC
genomic: GCATATCGAGGTTTTGCTCGCGAGTTCATCAAAGATTTGGAGAGAATCAGgtgctgatta ... tacaatgcagACCTAGGGCCATTCTGGACATCATCAAATCAGGGGAGAATTTCAGGATTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctttcttgtactcgctcacaaattgctgtgcttatgtttattatacaatgcagACCTAGGGCCATTCTGGACATCATCAAATCAGGGGAGAATTTCAGGATTTCTACTAGTACCAAGATGCCAGAGCAGGGAACATGCGAACGCTGCGGTTAT
cgctcac putative branch site (score: 3)
ttatgtttattataca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgctgattatccaatttgcttgctttcttgtactcgctcacaaattgctgtgcttatgtttattatacaatgcagACCTAGGGCCATTCTGGACATCATCAAATCAGGGGAGAATTTCAGGATTTCTACTAGTACCAAGATGCCAGAGCAGGGAACATGCGAACGCTGCGGTTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG