Sequence
atgc intronic sequence ATGC exonic sequenceTCACCTTCATTTACTTCCATCAATGAATCCTGATGGGTTTAGTTTAAAAAAGCGTGGTAATGCTAATAATATTGATCTGAATCGGGATTTTCCTGACCAGgtatatatatatatatatattttaatagtaatctgtataaagtatgttgataaagttggtttaaggttgtggaggatgctttattcttctgctggacatg...
Basic information
species | Glycine max |
transcript | GLYMA20G31000.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G31000.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G106683_T01 (Zea mays), 5'ss of exon 7
TCACCTTCATTTACTTCCATCAATGAATCCTGATGGGTTTAGTTTAAAAAAGCGTGGTAATGCTAATAATATTGATCTGAATCGGGATTTTCCTGACCAGgtatatatatatatatatattttaatagtaatctgtataaagtatgttgataaagttggtttaaggttgtggaggatgctttattcttctgctggacatg-----------------------------------------------
||||||||| ||||||| | ||||| |||||||||||| | | | | |||||||||||| || ||||||||||| || |||||||||||||||| || | || | | || ||| | | || ||| | | | | || | || | | | | || | | | |||| |
GCACCTTCATATACTTCCGACGATGAACCCTGATGGGTTTGCTCTTAGATGGCGTGGTAATGCAAACAATATTGATCTCAACAGGGATTTTCCTGACCAAgtgagt-tacttctttacattacacctcttttccttatggaagcttctacttccctttttgtaccccttttt----tcttgtagccattaaattgacacgagccaaaattgacagttcttccccgttaacaacgatattgactacag
upper sequence: GLYMA20G31000.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G106683_T02 (Zea mays), 5'ss of exon 7
TCACCTTCATTTACTTCCATCAATGAATCCTGATGGGTTTAGTTTAAAAAAGCGTGGTAATGCTAATAATATTGATCTGAATCGGGATTTTCCTGACCAGgtatatatatatatatatattttaatagtaatctgtataaagtatgttgataaagttggtttaaggttgtggaggatgctttattcttctgctggacatg---------------
||||||||| ||||||| | ||||| |||||||||||| | | | | |||||||||||| || ||||||||||| || |||||||||||||||| || | || | | || ||| | | || ||| | | | | || | || | | | | || | | | |||| |
GCACCTTCATATACTTCCGACGATGAACCCTGATGGGTTTGCTCTTAGATGGCGTGGTAATGCAAACAATATTGATCTCAACAGGGATTTTCCTGACCAAgtgagt-tacttctttacattacacctcttttccttatggaagcttctacttccctttttgtaccccttttt----tcttgtagccattaaattgacacgagccaaaattgacag
upper sequence: GLYMA20G31000.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G127941_T01 (Zea mays), 5'ss of exon 6
TCACCTTCATTTACTTCCATCAATGAATCCTGATGGGTTTAGTTTAAAAAAGCGTGGTAATGCTAATAATATTGATCTGAATCGGGATTTTCCTGACCAGgtatatatatatatatatattttaatagtaatctgtataaag---tatgttgataaagttggtttaaggttgtggaggatgctttattcttctgctggacatg
||||||||| ||||||| ||||||| |||||||||||| | | | | || ||||||||| || ||||||||||| || |||||||||||||||| || | || | | || ||| | | || ||| | | | | ||| | | || | | | | || | || | |
GCACCTTCATATACTTCCGACAATGAACCCTGATGGGTTTGCTCTTAGATGGCATGGTAATGCAAACAATATTGATCTCAACAGGGATTTTCCTGACCAAgtgagt-tacttctttacattacacctcttttccttatggaagcttctacttccctttttgtactcattttttcttgtagccattcaattgacactagccg--
upper sequence: GLYMA20G31000.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv18s0157g00050.t01 (Vitis vinifera), 5'ss of exon 7
TCACCTTCATTTACTTCCATCAATGAATCCTGATGGGTTTAGTTTAAAAAAGCGTGGTAATGCTAATAATATTGATCTGAATCGGGATTTTCCTGACCAGgtatatatatatatat-atattttaatagtaatctgtataa--agtatgttgataaagttggtttaaggt-tgtggaggatgctttattcttctgctggacatg
|||||| ||| ||||||| || |||||||||||||| ||| | | | |||||| ||||| |||||||||||||| ||||| |||||||| || ||||||| | | | | || | | || | || || | | | || ||| |||| |||| | |||| | | |||| |||| |
TCACCTGCATATACTTCCTTCCATGAATCCTGATGGATTTTCACTTAGGAGGCGTGGCAATGCAAATAATATTGATCTTAATCGTGATTTTCCAGATCAGgtatct-tttctgcatcacttgttcccttttatttggacatttacaatccagattgagtttgtttttgaaatgtgtaactgg---tatttgaaaaatggagaaaMapped 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|192301522|gb|FG994762.1|FG994762EST: AGCGTGGTAATGCTAATAATATTGATCTGAATCGGGATTTTCCTGACCAG TTCANNNNNNNNAATGATGATGAGGATTCCCGGCAACCTGAAACAAGAGCA
genomic: AGCGTGGTAATGCTAATAATATTGATCTGAATCGGGATTTTCCTGACCAGgtatatatat ... gaaacaacagTTCATTTTTTTTAATGATGATGAGGATTCCCGGCAACCTGAAACAAGAGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCACCTTCATTTACTTCCATCAATGAATCCTGATGGGTTTAGTTTAAAAAAGCGTGGTAATGCTAATAATATTGATCTGAATCGGGATTTTCCTGACCAGgtatatatatatatatatattttaatagtaatctgtataaagtatgttgataaagttggtttaaggttgtggaggatgctttattcttctgctggacatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtggagg