Sequence
atgc intronic sequence ATGC exonic sequenceAAATTATTTAGAATATATCAAGAGGGAGAAAAATGGGGCACTCCAGGCATTCCTGGTGAAACACATAAACAACTGGGTTACAAGAGCATACTGCCACAAGgtatgagaatttatcatcctagtaagcttggattaaggtagaagctaattgactaaacctttttgggcttcccttctccttaaaactagaagctccttca...
Basic information
species | Glycine max |
transcript | GLYMA03G36050.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G36050.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os02g33580.1 (Oryza sativa), 5'ss of exon 5
AAATTATTTAGAATATATCAAGAGGGAGAAAAATGGGGCACTCCAGGCATTCCTGGTGAAACACATAAACAACTGGGTTACAAGAGCATACTGCCACAAGgtatgagaatttatcatcctagtaagcttggattaaggtagaagctaattgactaaacctttttgggcttcccttctccttaaaactagaagctccttca-
||||| |||||||||||||||| ||||| ||||| || || || || |||||||| |||||||| ||||| ||||| || |||||||||||| | ||||| ||| | | |||| || |||| | || | || | ||| | | || || | ||| | ||
GAATTACCTAGAATATATCAAGAGAGAGAAGAATGGTGCTCTTCAAGCTTTCCTGGTCAAACACATCAACAATTGGGTGACCAGAGCATACTGCGATAAGgtgctg--------tatctagctcaacttg--ttctggta--------tcatctggatgcacttcagtttcagtattgct---aatgaatggcttatgcag
upper sequence: GLYMA03G36050.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os04g34000.1 (Oryza sativa), 5'ss of exon 5
AAATTATTTAGAATATATCAAGAGGGAGAAAAATGGGGCACTCCAGGCATTCCTGGTGAAACACATAAACAACTGGGTTACAAGAGCATACTGCCACAAGgtatgagaatttatcatccta---gtaagcttggatta--aggtagaagctaattgactaaacctttttgggcttcccttctccttaaaactagaagctccttca
|||||| |||| ||||||||||| ||||| ||||| || || || || ||||| || || || || ||||||||||| || ||||||||||| || ||||||| || | || |||| |||| ||| ||| || || | | | |
AAATTACCTAGAGTATATCAAGAGAGAGAAGAATGGAGCTCTTCAAGCTTTCCTTGTTAAGCATATCAACAACTGGGTGACTAGAGCATACTGTCATAAGgtattgtgtttgcttgtctcgtgtaaaagccctgattgctagggtgaaacttat--aatgggtgcatgcag----------------------------------
upper sequence: GLYMA03G36050.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G092588_T01 (Zea mays), 5'ss of exon 3
AAATTATTTAGAATATATCAAGAGGGAGAAAAATGGGGCACTCCAGGCATTCCTGGTGAAACACATAAACAACTGGGTTACAAGAGCATACTGCCACAAGgtatgagaatttat-catcctagtaagcttggattaaggtagaagctaattgactaaacctttttgggcttcccttctccttaaaactagaagctccttca
||| || | |||||||||||||| ||||| ||||| || || ||||| || || || |||||||| ||||| ||||| || ||||||||||| |||||||| ||| | | | |||| ||| | | || | | | || || | | | | |||
AAACTACCTGGAATATATCAAGAGAGAGAAGAATGGAGCTCTTCAGGCCTTTCTAGTTAAACACATCAACAATTGGGTGACCAGAGCATACTGTGACAAGgtac-----tttgtatagcttagttgttttg---ttaattacacggatgcccatgaacactcctaatgttattcatctatag-------------------
upper sequence: GLYMA03G36050.1 (Glycine max), 5'ss of exon 5
lower sequence: AC233887.1_FGT006 (Zea mays), 5'ss of exon 5
AAATTATTTAGAATATATCAAGAGGGAGAAAAATGGGGCACTCCAGGCATTCCTGGTGAAACACATAAACAACTGGGTTACAAGAGCATACTGCCACAAGgtatgag----aatttatcatcctagtaagcttggattaaggtagaagctaattgactaaacctttttgggcttcccttctccttaaaactagaagctccttca
|||||| || |||||||||||||| ||||||||||| || | ||| | || || || ||||| || || |||||||| || |||||||||||||| ||||||| | | | | | ||| | | | | |||| | | | | | ||
AAATTACTTGGAATATATCAAGAGAGAGAAAAATGGTGCTATTCAGTCTTTTCTTGTTAAACATATCAATAACTGGGTGACTAGAGCATACTGCCATAAGgtatttgtttaggtcagtttttgtgttaaattcctgctcatg-agaactcagctaataatgggtgcgtgcag--------------------------------
upper sequence: GLYMA03G36050.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv08s0105g00260.t01 (Vitis vinifera), 5'ss of exon 5
AAATTATTTAGAATATATCAAGAGGGAGAAAAATGGGGCACTCCAGGCATTCCTGGTGAAACACATAAACAACTGGGTTACAAGAGCATACTGCCACAAGgtatgagaatttatcatcctagtaagcttggattaaggtagaagctaattgactaaacctttttgggcttcccttctccttaaaactagaagctccttca---
|||||| ||||||||||||||||| ||||| || ||||||||||| || ||| | |||||||||||||| || |||||| ||||||||||||||||||||||| | | ||| || || || | | | | | | | | ||| || | || | | || | | || ||||
AAATTACTTAGAATATATCAAGAGAGAGAAGAACGGGGCACTCCAAGCTTTCTTTGTGAAACACATAAATAATTGGGTTGCAAGAGCATACTGCCACAAGgta--actgtctattatgtgcatattctgatctgatgattggtgatgttctttctccattttgtgtgttttatagcatggtctgtct-gtaactagttcaataMapped 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|16997085|gb|BM086457.1|BM086457EST: TCCTGGTGAAACACATAAACAACTGGGTTACAAGAGCATACTGCCACAAG GTTCTTCGTCTCTCAGCTGCTACTCAGGATTTACCAAAGTCTGTAATTTGC
genomic: TCCTGGTGAAACACATAAACAACTGGGTTACAAGAGCATACTGCCACAAGgtatgagaat ... ttatattcagGTTCTTCGTCTCTCAGCTGCTACTCAGGATTTACCAAAGTCTGTAATTTGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAATTATTTAGAATATATCAAGAGGGAGAAAAATGGGGCACTCCAGGCATTCCTGGTGAAACACATAAACAACTGGGTTACAAGAGCATACTGCCACAAGgtatgagaatttatcatcctagtaagcttggattaaggtagaagctaattgactaaacctttttgggcttcccttctccttaaaactagaagctccttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctccttc