Sequence
atgc intronic sequence ATGC exonic sequenceTGCGATTTCTGAAAGCAGACACAGAAGAATCTATTTCATATGGACATTTCCGCAATTTCATGCTTCTGCTTCCCTCTGATCGTCTTCAAGAAGATCCCAGgtaagataaatatgagcaattgattttttgtgtatttatttccccttgtatgcattggatataatgtccatcactaatcctttttaaatatatattttgt...
Basic information
species | Glycine max |
transcript | GLYMA20G31800.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G31800.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G003033_T01 (Zea mays), 5'ss of exon 2
TGCGATTTCTGAAAGCAGACACAGAAGAATCTATTTCATATGGACATTTCCGCAATTTCATGCTTCTGCTTCCCTCTGATCGTCTTCAAGAAGATCCCAGgtaagataaatatgagcaatt-gattttttgtgtatttatttccccttgtatgcattg-gatataatgtccatcactaatcct-----ttttaaatatatattttgt---------------------------------------
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TACGTTATCTAAATGCTGATTCAGAAGGATCAATCTCATATGGCCATTTCCGCAACTTCATGCTTCTACTTCCTTCGGAACGTCTTGAGGATGATCCTCGgtatgtctgatgtatcctgttagaagaaacctgcagttgaattggctttagggaatagtgattctgcaattatcaccaattctgactatctttcatgattatatggtgctttcctaattatcttctcttacttcaaatgcattcag
upper sequence: GLYMA20G31800.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G146378_T01 (Zea mays), 5'ss of exon 2
TGCGATTTCTGAAAGCAGACACAGAAGAATCTATTTCATATGGACATTTCCGCAATTTCATGCTTCTGCTTCCCTCTGATCGTCTTCAAGAAGATCCCAGgtaagataaatatgagcaatt-gattttttgtgtatttatttccccttgtatgcattg-gatataatgtccatcactaatcctttttaaatatatattttgt------------------
| || | ||| || || || |||||| ||| || |||||||| ||||||||||| ||||||||||| ||||| || || || ||| | || ||||| |||| | || | | || || ||| || | ||| | || | || |||||| ||| || || ||| | | | |
TACGGTATCTAAATGCTGATTCAGAAGGATCAATCTCATATGGCCATTTCCGCAACTTCATGCTTCTACTTCCTTCAGAACGCCTTGAGGATGATCCTCGgtatgtctgatgtatcctgttagaagaaacctgtgattgaattggctttagggaatagtgactctgcaatcatcaccaattctgac-aattatcttctctttacttacaaattcactcag
upper sequence: GLYMA20G31800.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv13s0019g03870.t01 (Vitis vinifera), 5'ss of exon 2
TGCGATTTCTGAAAGCAGACACAGAAGAATCTATTTCATATGGACATTTCCGCAATTTCATGCTTCTGCTTCCCTCTGATCGTCTTCAAGAAGATCCCAGgtaagataaatatgagcaattgattttttgtgtatttatttccccttgtatgcattggatataatgtccatcactaatcctttttaaatatatattttgt---
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TGCGATTTCTAAATGCAGACATGGAAGGATCAATTTCTTATGGTCACTTCCGGAATTTTATGCTTCTGCTACCATCTGATCGACTTCAAGATGATCCCAGgtaatattaatttgctcctttgaacaat-gttaatgtgatataaattataggtccattacctagcaacccaaact--ttttggtcggttggtaacttaacataMapped 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|15285853|gb|BI469744.1|BI469744EST: CGCAATTTCATGCTTCTGCTTCCCTCTGATCGTCTTCAAGAAGATCCCAG GAGTATCTGGTTTGAAGCTGCGACAGTAGTTGCTGTTCCACCAGCTGTTGA
genomic: CGCAATTTCATGCTTCTGCTTCCCTCTGATCGTCTTCAAGAAGATCCCAGgtaagataaa ... atactttcagGAGTATCTGGTTTGAAGCTGCGACAGTAGTTGCTGTTCCACCAGCTGTTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCGATTTCTGAAAGCAGACACAGAAGAATCTATTTCATATGGACATTTCCGCAATTTCATGCTTCTGCTTCCCTCTGATCGTCTTCAAGAAGATCCCAGgtaagataaatatgagcaattgattttttgtgtatttatttccccttgtatgcattggatataatgtccatcactaatcctttttaaatatatattttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG