Sequence
atgc intronic sequence ATGC exonic sequencegtttgaatgccttttttcttttcatcttatttgtttttccttgtggtggatattcattagtaatttatgtcacttgttgtttgtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTAC
Basic information
species | Glycine max |
transcript | GLYMA17G03430.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G03430.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 3
gtttgaatgccttttttcttttcatcttatt-tgtttttccttgtggtggatattcattagtaatttatgtcacttgttgtttgtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTAC
|| |||| | || | | ||| | | | || | | || ||| | | | || || || || | ||||| || ||||||||||| || ||||||||||||||||| ||||| ||||| || ||||| || |||||||||||||| || || |||||||| ||||| |
--gtgtgtgccaacacaatattattttcattatctggtaggttcaaataaaaatggatttattactgtggtgcttttgaattaaattttgtagTTCGAAGCTGCGTGGGCACTTACAAACATTGCATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTC
upper sequence: GLYMA17G03430.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 3
gtttgaatgccttttttcttttcatcttatttgtttttccttgtggtggatattcattagtaatttatgtcacttgttgtttgtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTAC
| ||| ||| | | | ||||| | | || | | ||||| || | | | || |||| || ||||| |||| || || || |||||||||||||| ||||| ||||| ||||| || || || ||||| || |||||||||||||| |||||||||||||| ||||| |
----gtatgttgatttaatataaaccttatatcctgttgtt---gctggatgaaaatgaatttctcatcagctttgtaattcttttgt--agTTCGAAGCAGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTC
upper sequence: GLYMA17G03430.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G088231_T01 (Zea mays), 3'ss of exon 3
------gtttgaa---tgccttttttcttttcatcttatttgtttttccttgt-ggtggatattcattagtaatttatgtcacttgttgtttgtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTAC
| || || ||| | |||| | | | |||| | ||||| || | | | ||| || | || ||||| ||||||| || || |||||||||||||| ||||| ||||| ||||| || || || |||| || ||||| |||||||| |||||||||||||| ||||| |
tttggcgcttaaaaggtgcttaagcgattttttagtaaccatgaccccgttgtcgctggatgaaaatgaatttctcatgagctttataattcttttgt--agTTTGAAGCCGCATGGGCTCTCACAAATATTGCTTCTGGCACTTCAGAAAATACAAAGGCTGTTATTGACCATGGGGCTGTTCCTATATTTGTGAAGCTTC
upper sequence: GLYMA17G03430.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0077g01430.t01 (Vitis vinifera), 3'ss of exon 3
gtttgaatgccttttttcttttcatcttatttgttt-ttccttgtggtggatattcattagtaatttatgtcacttgttgtttg---tttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTAC
||||| || ||| || | || |||| || || || || | || ||| | |||| ||| | | | || ||||| ||||||||||| || |||||||||||||||||||| |||||||| || || || || |||||||||||||||||||| ||||| || |||||||| |||||||
gtttgggattgttctttgttacattgttgtttggttattagcagttttgtagtttgtttaagtacttatttcaataatggcttcaattttgtctagTTTGAGGCAGCTTGGGCTCTCACAAACATTGCTTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTACMapped 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|209724999|gb|BW659745.1|BW659745EST: TTCCACGTTTTGTTGAGTTTCTTGTTAGAGAGGATTTCCCTCAACTTCAG TTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAAC
genomic: TTCCACGTTTTGTTGAGTTTCTTGTTAGAGAGGATTTCCCTCAACTTCAGgtttgaatgc ... gtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAAC
EST:
gi|17021162|gb|BM092196.1|BM092196EST: TTCCACGTTTTGTTGAGTTTCTTGTTAGAGAGGATTTCCCTCAACTTCAG TTTGAGGCTGCGTGGGCTCTC
genomic: TTCCACGTTTTGTTGAGTTTCTTGTTAGAGAGGATTTCCCTCAACTTCAGgtttgaatgc ... gtttgtttagTTTGAGGCTGCGTGGGCTCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccttgtggtggatattcattagtaatttatgtcacttgttgtttgtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTAC
tttgttt CT-rich tract
atattcattagtaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgaatgccttttttcttttcatcttatttgtttttccttgtggtggatattcattagtaatttatgtcacttgttgtttgtttgtttagTTTGAGGCTGCGTGGGCTCTCACAAACATTGCATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTAC
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