Sequence
atgc intronic sequence ATGC exonic sequenceTGAGGAAGATGGAACGGCACCGGCGAAACCTGGGTCAGGGATTACAGTGGCTGTCAAAAGCTTGAAGCCAGATGGCCTTCAGGGCCATAGAGAATGGGTGgttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacaacatggcattttgttgatgcag
Basic information
species | Glycine max |
transcript | GLYMA17G12060.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G12060.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os06g07230.1 (Oryza sativa), 5'ss of exon 2
TGAGGAAGATGGAACGGCACCGGCGAAACCTGGGTCAGGGATTACAGTGGCTGTCAAAAGCTTGAAGCCAGATGGCCTTCAGGGCCATAGAGAATGGGTGgttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacaacatggcattttgttgatgcag
||| | | | || | || || ||||| || | || ||||||| ||||||||||| ||||||| |||| ||||| || || |||||||||||||| |||| | || | || | | ||| || | | || | || | | | |
TGATCCAAACAGCACATCTCCTGCAAAACCCGGTACTGGTCTTACAGTTGCTGTCAAAAGTTTGAAGCAGGATGCACTTCAAGGTCACAGAGAATGGGTGgtaagtatgtgcttgtcctgtacatgtgtttgtgtaggtagagttataacttac---aaacataccgtatttgcag------------------------------
upper sequence: GLYMA17G12060.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G014596_T01 (Zea mays), 5'ss of exon 2
TGAGGAAGATGGAACGGCACCGGCGAAACCTGGGTCAGGGATTACAGTGGCTGTCAAAAGCTTGAAGCCAGATGGCCTTCAGGGCCATAGAGAATGGGTGgttagtaaaatatcttctgctttgggttagtagattg-gtgttgtaaagagttgtttaggatatgctggagattagattgtaacaacatggcattttgttgatgcag
|||| | | | || || || || |||||||| ||||| |||| ||||| || ||||| ||||||||||||| ||||| || ||||||||||||||||| |||| ||| | | || || | || | |||||||| | |||||| | || | || || | |
TGAGCCAAACAGCACTGCTCCTGCAAAACCTGGCACAGGGGTTACTGTGGCAGTAAAAAGTTTGAAGCCAGATGCGCTTCAAGGTCATAGAGAATGGGTGgtaagtattgtatgtcattttt---atttttgaatggagtgttgtaggta-ttgttttaaaaataatcatatttccat-gcag------------------------
upper sequence: GLYMA17G12060.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G410191_T02 (Zea mays), 5'ss of exon 6
TGAGGAAGATGGAACGGCACCGGCGAAACCTGGGTCAGGGATTACAGTGGCTGTCAAAAGCTTGAAGCCAGATGGCCTTCAGGGCCATAGAGAATGGGTGgttagtaaaatatcttctgctt-tgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacaacatggcattttgttgatgcag
|||| | | | || || || || |||||||| | ||| |||| ||||| |||||||| ||||||||||||| ||||| || ||||||||||||||||| |||| ||| | | || | | | | || || ||| | | | ||| || | ||| | | ||
TGAGCCAAACAGCACTGCTCCTGCAAAACCTGGCACGGGGGTTACTGTGGCAGTCAAAAGTTTGAAGCCAGATGCACTTCAAGGTCATAGAGAATGGGTGgtaagtattgtatgtcatttttatttttgaatggagtgttgtaggtatg-gtttttaaaaataatcagatttccag-------------------------------
upper sequence: GLYMA17G12060.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G410191_T01 (Zea mays), 5'ss of exon 6
TGAGGAAGATGGAACGGCACCGGCGAAACCTGGGTCAGGGATTACAGTGGCTGTCAAAAGCTTGAAGCCAGATGGCCTTCAGGGCCATAGAGAATGGGTGgttagtaaaatatcttctgctt-tgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacaacatggcattttgttgatgcag
|||| | | | || || || || |||||||| | ||| |||| ||||| |||||||| ||||||||||||| ||||| || ||||||||||||||||| |||| ||| | | || | | | | || || ||| | | | ||| || | ||| | | || | | || | || || |
TGAGCCAAACAGCACTGCTCCTGCAAAACCTGGCACGGGGGTTACTGTGGCAGTCAAAAGTTTGAAGCCAGATGCACTTCAAGGTCATAGAGAATGGGTGgtaagtattgtatgtcatttttatttttgaatggagtgttgtaggtatg-gtttttaaaaataatcagatttccaggcagaagt----tgactttctgggacagt--
upper sequence: GLYMA17G12060.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G446189_T01 (Zea mays), 5'ss of exon 4
TGAGGAAGATGGAACGGCACCGGCGAAACCTGGGTCAGGGATTACAGTGGCTGTCAAAAGCTTGAAGCCAGATGGCCTTCAGGGCCATAGAGAATGGGTGgttagtaaaatatcttctgctt-tgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacaacatggcattttgttgatgcag
|||| | | | || || || || |||||||| ||||| |||| ||||| |||||||| ||||||||||||| | ||| || ||||||||||||||||| |||| ||| | | || | | | | || || ||| | | | ||| || | ||| | ||
TGAGCCAAACAGCACAGCTCCTGCAAAACCTGGCACAGGGGTTACTGTGGCAGTCAAAAGTTTGAAGCCAGATGCGCCTCAAGGTCATAGAGAATGGGTGgtaagtattgtatgtcatttttatttttgaatggagtgttgtaggtatg-gtttttaaaaataatcacatttccag-------------------------------
upper sequence: GLYMA17G12060.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv11s0016g05720.t01 (Vitis vinifera), 5'ss of exon 2
TGAGGAAGATGGAACGGCACCGGCGAAACCTGGGTCAGGGATTACAGTGGCTGTCAAAAGCTTGAAGCCAGATGGCCTTCAGGGCCATAGAGAATGGGTGgttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacaacatggcattttgttga-tgcag
||||| |||| || ||||| || ||||||||||||||||||||||||||||||||||| |||||||||||||| ||||| ||||||||||||||||||||||||| | ||| | |||||||||||||||||| ||| ||| ||| | || | | | || | || ||| | | |||||||| | ||||
AGAGGAGAATGGGACAGCACCTGCAAAACCTGGGTCAGGGATTACAGTGGCTGTCAAAAGTTTGAAGCCAGATGGTCTTCAAGGCCATAGAGAATGGGTGgttagtagattattt---actttgggttagtagattgac-ttg-aaaatgttagtaagaggctac-aaatatgacatgttaatgata-ggcattttcccaaacgcagMapped 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|10232151|gb|BE801039.1|BE801039EST: AAAGCTTGAAGCCAGATGGCCTTCAAGGCCATAGAGAATGGGTG GCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTT
genomic: AAAGCTTGAAGCCAGATGGCCTTCAGGGCCATAGAGAATGGGTGgttagtaaaa ... gttgatgcagGCTGAAGTTGACTTTCTTGGACAGCTTCACCATCCTAACCTTGTGAAACTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAGGAAGATGGAACGGCACCGGCGAAACCTGGGTCAGGGATTACAGTGGCTGTCAAAAGCTTGAAGCCAGATGGCCTTCAGGGCCATAGAGAATGGGTGgttagtaaaatatcttctgctttgggttagtagattggtgttgtaaagagttgtttaggatatgctggagattagattgtaacaacatggcattttgttgatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG