Sequence
atgc intronic sequence ATGC exonic sequenceTATGCTTTTAATCTATTCTCGCATAATGCGTCTGTTCTTTCAAATGGATATAATGAAGAAGAAATGAAAATGGTCAAGGAGACCAGGAAAATCTGGgtgggtaagctgaaattgaatctttataaattgtttattaggtttttttgtttcatgttatggaatagttgctaagttttacccttgcacttctacag
Basic information
species | Glycine max |
transcript | GLYMA08G05250.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G05250.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g55280.1 (Oryza sativa), 5'ss of exon 4
TATGCTTTTAATCTATTCTCGCATAATGCGTCTGTTCTTTCAAATGGATATAATGAAGAAGAAATGAAAATGGTCAAGGAGACCAGGAAAATCTGGgtgggt-aagctgaaattgaatctttataaattgtt-----------tattaggtttttttgtttcatgttatggaatagttg-ctaagttttacccttgcacttctacag------
|||||||||||| |||| || |||||||| | || || |||||| || ||||| || || ||||| ||||| ||||||||||| ||||||||||| || || ||||||| | || | || || |||| | ||| | ||| | || | || | || | || ||||| |
TATGCTTTTAATATATTTTCACATAATGCACCAATTGTTGAAAATGGGTACAATGAGGAGGAGATGAAGATGGTGAAGGAGACCAGAAAAATCTGGgtatgtgaaagccaaattgatgtctaggaagtcattgcattactctccatccaacttttctctttaactttaagaaaacataaattacatcctaactttatgcttctctattcctag
upper sequence: GLYMA08G05250.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G076885_T01 (Zea mays), 5'ss of exon 4
TATGCTTTTAATCTATTCTCGCATAATGCGTCTGTTCTTTCAAATGGATATAATGAAGAAGAAATGAAAATGGTCAAGGAGACCAGGAAAATCTGGgtgggtaagctgaaattgaatctttataaattgtttattaggtttttttgtttcatgttatggaatagttgctaagttttacc--cttgcacttctacag----------------------------
|||||||||||| ||||||| || ||||| | |||||| ||||| ||||| || || |||||||||||||| ||||||||||||||||| ||||| || || || || | |||| |||| || | | | | | | | ||| || ||| | ||| | || |
TATGCTTTTAATATATTCTCACACAATGCACCAGTTCTTGAGAATGGGTATAACGAGGAGGAAATGAAAATGGTGAAGGAGACCAGGAAAATTTGGgttagtct-ttgcgatcccattggtctaaacagtttcctatgaagtct-gcattactctgctgaacttttctctcgttatgataatttgagcaaatataattgccttctaactgctgtccattgctag
upper sequence: GLYMA08G05250.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv01s0011g05860.t01 (Vitis vinifera), 5'ss of exon 4
TATGCTTTTAATCTATTCTCGCATAATGCGTCTGTTCTTTCAAATGGATATAATGAAGAAGAAATGAAAATGGTCAAGGAGACCAGGAAAATCTGGgtgggt----aagctgaaattg---aatctttataaattgtttattaggttttt------------ttgtttcat-gttatggaatagttgctaagttttaccct-tgcacttc-tacag--------------------------
|||||||||||||| || || || ||||| |||||||| ||||||| || |||||||| ||||||||| | || || ||||| ||||||||||||||| || | || ||| |||| ||| | ||| | ||| | || ||||||| | | | |||| || | || ||| | || | || || |
TATGCTTTTAATCTCTTTTCACACAATGCACCTGTTCTTCCAAATGGGTACAATGAAGAGGAAATGAAATTAGTAAAAGAGACAAGGAAAATCTGGgtgagtttatgatcttttattccttgctcttcatatttggttaactagatacttctttgatagggtttgtttcgcagatgctggataggagccaggtcttaatttgtgtagtttatataacatgactttttgtttctatgttgtagMapped 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|254332378|gb|GR846423.1|GR846423EST: GATATAATGAAGAAGAAATGAAAATGGTCAAGGAGACCAGGAAAATCTGG AATAATAAGGACGTTAAAGTAACTGCCACATGCATACGAGTTCCTGTCATG
genomic: GATATAATGAAGAAGAAATGAAAATGGTCAAGGAGACCAGGAAAATCTGGgtgggtaagc ... acttctacagAATAATAAGGACGTTAAAGTAACTGCCACATGCATACGAGTTCCTGTCATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATGCTTTTAATCTATTCTCGCATAATGCGTCTGTTCTTTCAAATGGATATAATGAAGAAGAAATGAAAATGGTCAAGGAGACCAGGAAAATCTGGgtgggtaagctgaaattgaatctttataaattgtttattaggtttttttgtttcatgttatggaatagttgctaagttttacccttgcacttctacag
- - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA