Sequence
atgc intronic sequence ATGC exonic sequenceTGAAGAAGCATGGGTTGGAGATTTCACAGCCTGGTTTGGAACCTAATAAAGGATTGACATGGCAAATGACAAAGAGAAGAGGTGATCGTGAAGTTCACAAgtaagacaagaatcttgtgttagttttcttctggtacttgttttgtaaaagaatgtgtactaactgttttttttttttttttatttctattag
Basic information
species | Glycine max |
transcript | GLYMA05G30830.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G30830.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G162881_T01 (Zea mays), 5'ss of exon 2
--TGAAGAAGCATGGGTTGGAGATTTCACAGCCTGGTTTGGAACCTAATAAAGGATTGACATGGCAAATGACAAAGAGAAGAGGTGATCGTGAAGTTCACAAgtaagacaagaatcttgtgttagttttcttctggtacttgttttgtaaaagaatgtgtactaactgtttttt----ttttttttttatttctattag
| | |||||||||| | ||||| ||| |||||||||||| || ||||||| ||||||||||||||||| || |||||||||||| ||||| ||||||| || || || ||| | || | | | |||||| ||| | | || ||| | | | |||| ||| | ||
TGTTAGGAAGCATGGGCTTGAGATCTCA--GCCTGGTTTGGAGCCCGATAAAGGTTTGACATGGCAAATGACTAAACGAAGAGGTGATCAGGAAGTCCACAAgtgagc------tcctgaattaatattgctttacca-ttgtttagtagccacacacagctatattggtttctggaatggtattttgctttttcacag
upper sequence: GLYMA05G30830.1 (Glycine max), 5'ss of exon 9
lower sequence: AT1G67850.1 (Arabidopsis thaliana), 5'ss of exon 9
TGAAGAAGCATGGGTTGGAGATTTCACAGCCTGGTTTGGAACCTAATAAAGGATTGACATGGCAAATGACAAAGAGAAGAGGTGATCGTGAAGTTCACAAgtaagacaagaatcttgtgttagttttcttctggtacttgtttt--gtaaaagaatgtgtactaactgttttttttttttttttatttctattag
|||||||||| || |||||||||| || ||||| |||||||| || | ||| | || |||||||||||||||||| |||| ||| |||||||||||||| | | | | || || | | ||||| ||| || || | || || | | ||| | ||||
TGAAGAAGCACGGCCTGGAGATTTCCCAACCTGGCTTGGAACCAAACCAGGGACTAACGTGGCAAATGACAAAGAGACGAGGAGATATGGAAGTTCACAAgtatgttggataaaatccctcagattatggccatgtttagttttctgtataatgatctttatgaagtaatgggctttgaatcttatcag------
upper sequence: GLYMA05G30830.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv01s0137g00770.t01 (Vitis vinifera), 5'ss of exon 9
TGAAGAAGCATGGGTTGGAGATTTCACAGCCTGGTTTGGAACCTAATAAAGGATTGACATGGCAAATGACAAAGAGAAGAGGTGATCGTGAAGTTCACAAgtaagacaagaatcttgtgtta--gttttcttctggtacttgttttgtaaaagaatgtgtactaactgttttttttttttttt------tatttctattag
||| ||| |||| |||||||||||||| |||||||| |||||||||||||| || |||||||| ||||||||||||||||||||||||||||| ||||||||||| | | | | ||| ||| | || || || | || | | || ||| | || ||||| | |||||| ||
TGAGGAAATATGGCTTGGAGATTTCACAACCTGGTTTAGAACCTAATAAAGGGTTAACATGGCAGATGACAAAGAGAAGAGGTGATCGTGAAGTCCACAAgtaagaataaacattaacaccaaagttccctttcatttgttacttattatagattaatggaatgaccttttctccttgtttttccccaatttttctaccag
upper sequence: GLYMA05G30830.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv00s0187g00030.t01 (Vitis vinifera), 5'ss of exon 5
TGAAGAAGCATGGGTTGGAGATTTCACAGCCTGGTTTGGAACCTAATAAAGGATTGACATGGCAAATGACAAAGAGAAGAGGTGATCGTGAAGTTCACAAgtaaga-caagaat-----cttgtgttagttttcttctggtacttgttttg---taaaagaatgtgtactaactgttttttttttttttttatttctattag
||| ||| |||| |||||||||||||| |||||||| |||||||||||||| || |||||||| |||||||| |||||||||||||| ||||| ||||||||||| || || | ||| |||| | || ||||| || | ||| ||||| | || || ||||| | |||||| |
TGAGGAAATATGGCTTGGAGATTTCACAACCTGGTTTAGAACCTAATAAAGGGTTAACATGGCAGATGACAAAAAGAAGAGGTGATCGAGAAGTCCACAAgtaagaataaacattaacaccaaagttccctttcatttgttacttattatagattaatggaatg-accttttctccttgtttttcccccatttttctacca-Mapped 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|193438151|gb|FK402170.1|FK402170EST: GGATTGACATGGCAAATGACAAAGAGAAGAGGTGATCGTGAAGTTCACAA AGAAACAGAGGAG
genomic: GGATTGACATGGCAAATGACAAAGAGAAGAGGTGATCGTGAAGTTCACAAgtaagacaag ... tttctattagAGAAACAGAGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAAGAAGCATGGGTTGGAGATTTCACAGCCTGGTTTGGAACCTAATAAAGGATTGACATGGCAAATGACAAAGAGAAGAGGTGATCGTGAAGTTCACAAgtaagacaagaatcttgtgttagttttcttctggtacttgttttgtaaaagaatgtgtactaactgttttttttttttttttatttctattag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG