Sequence
atgc intronic sequence ATGC exonic sequenceAATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATGAGgttcttatttaatttgtttacttattctacacctgaatgctataagtttgtacttattctacgctagtttgtaacccgttgttatgattcag
Basic information
species | Glycine max |
transcript | GLYMA17G20610.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G20610.4 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os03g55600.1 (Oryza sativa), 5'ss of exon 3
AATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATGAGgttcttatttaatttgtttacttattctacacctgaatgctataagtttgtacttattctacgctagtttgtaacccgttgttatgattcag--------
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TATTTTAACCCCAACTCATCTTGCTATTGTCATGGAATATGCCTCTGGTGGTGAGCTTTTCGAGAGAATTTGTAAGAATGTACGGTTCAGTGAAGATGAGgtacgcacc--atttccctggtgcatcctctttttgatgc-atctttcttgagtgacatattgatcgcactaattgcatcggtctgattctactttctag
upper sequence: GLYMA17G20610.4 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G171435_T02 (Zea mays), 5'ss of exon 3
AATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATGAGgttcttatttaatttgtttacttattctacacctgaatgctataagtttgtacttattctacgctagtttgtaacccgttgttatgattcag
||||||||||| || |||||||||||||| ||||||||||| ||||| || ||||| ||||||| ||| || || | ||| || | || ||||||||| | || || | || | | || | | |||| |||| |||| | | | || | | | |||
TATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGAATATGTAAGAACGTGCGATTCAGTGAAGATGAGgtttgtgcttgccac-ttggttcatctttcttcttgacacacctcgttt---tttatcctac-caaatgtgcgtgtatatatatctttccag
upper sequence: GLYMA17G20610.4 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G138861_T01 (Zea mays), 5'ss of exon 4
AATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATGAGgttcttatttaatttgtttacttattctacacctgaatgctataagtttgtacttattctacgctagtttgta-acccgttgttatgattcag
||||||||||| || |||||||||||||| ||||||||||| ||||| || ||||| ||||||| || || || | ||| || | || ||||||||| | || ||| | || | | || || | | | | | | || |||| | | | | | | ||
TATTTTAACACCGACCCATCTTGCTATTGTCATGGAATATGCCTCTGGCGGTGAGCTTTTTGAGAGGATATGTAAGAACGTGCGATTCAGTGAAGATGAGgtttgtgcttgccac-tttgttcatctttcttct---tgacacatctctttcttgatcctac-caaatgcacatatatatctttccag-----
upper sequence: GLYMA17G20610.4 (Glycine max), 5'ss of exon 3
lower sequence: Vv07s0197g00080.t01 (Vitis vinifera), 5'ss of exon 3
AATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATGAGgttctt-atttaatttgtttacttattctacacctgaatgctataagtttgtacttattctacgctagtttgtaacccgttgttatgattcag
|| |||||||| || ||||| |||||||| ||||||||||| |||| |||||||| ||||| || ||||| || ||||| || | ||||||||||||||| ||| || || || || || | ||||| || ||| | | | ||| || |||| | | |||
CATATTAACACCAACCCATCTAGCTATTGTGATGGAATATGCTGCTGGTGGAGAGCTTTTTGAACGTATATGCAAGGCAGGGCGCTTCATTGAGGATGAGgttcttgattcaacccattgggttttttcttttctagtt--------tttgtgctatttccatggtttcttgacactggttgcttc--tgcagMapped 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|17152867|gb|BM142800.1|BM142800EST: GAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATGAG GCTCGATTCTTCTTTCAGCAACTCATATCTGGGGTCAGCTATTGCCATGCT
genomic: GAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATGAGgttcttattt ... tatgattcagGCTCGATTCTTCTTTCAGCAACTCATATCTGGGGTCAGCTATTGCCATGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATTTTAACACCTACTCATCTTGCTATTGTAATGGAATATGCATCTGGGGGAGAGCTCTTTGAGAAAATCTGCAATGCTGGGCGTTTTACCGAGGATGAGgttcttatttaatttgtttacttattctacacctgaatgctataagtttgtacttattctacgctagtttgtaacccgttgttatgattcag
- - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG