Sequence
atgc intronic sequence ATGC exonic sequence...atatagttccctttcatattaaacaacgaaacgtttatttgttgtggttatgttattggtgttattctgtaaatatgattttcctgtgaatttttgatagTGCCAAACTCATTGACATCTATCGTACACGCCACAATATTAGTTCATCTACTGGTTTGAGTGATCCAGCTGTTGCCACTGGTATATCTGATCTTGTCTAT
Basic information
species | Glycine max |
transcript | GLYMA08G03020.1 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G03020.1 (Glycine max), 3'ss of exon 19
lower sequence: LOC_Os03g15900.2 (Oryza sativa), 3'ss of exon 17
atatagttccctttcatattaaacaacgaaacgtttatttgttgtggttatgttattg-gtg-ttattctgta---aatatgattttcctgtgaattt--ttgatagTGCCAAACTCATTGACATCTATCGTACACGCCACAATATTAGTTCATCTACTGGTTTGAGTGATCCAGCTGTTGCCACTGGTATATCTGATCTTGTCTAT
| | || ||||| | | || | |||| ||| | | ||||| || || || || ||||| || | ||||| | | ||||| ||||||||||||||||| || | || || || |||||| | ||| ||||| | |||||||| |||||||| ||||| ||||||||||| | |||
-----gccttttgtcctattattctttcatac-ctcattttccgtgat-gcggtattgtgtaactaccctatatttaatatcatgtaatgttgaatctaatctgcagTGCGAAACTCATTGACATCTACCGCAACCGGCATAACATTAGTACTTCTTCTGGTCTAAGTGATCCTGCTGTTGCTACTGGCATATCTGATCTCATGTAT
upper sequence: GLYMA08G03020.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G012319_T02 (Zea mays), 3'ss of exon 18
atatagttccctttc-atattaaacaacgaaacgtttatttgttgtggttatgttattggtgttat-tctgtaaatatgattttcctgtgaat-ttttgatagTGCCAAACTCATTGACATCTATCGTACACGCCACAATATTAGTTCATCTACTGGTTTGAGTGATCCAGCTGTTGCCACTGGTATATCTGATCTTGTCTAT
| || | || || | | ||| | | || |||| || || || | | ||| | |||| | | | | | | | || |||||||| || ||||| ||||| || | || || || || ||| | ||| |||| | |||||||| |||||||||||||| ||||||||||| | |||
--cttgtgctaaatcgatgtctcctttaatttcttttgctggatgca-ttattttgttagtatcctgtctcttgatattaagtatgttcaactgtatggacagTGCCAAGCTAATTGAGATCTACCGCAACCGTCATAACATAAGTGCTTCTGGTGGTCTAAGTGATCCTGCTGTTGCCACTGGAATATCTGATCTCATGTAT
upper sequence: GLYMA08G03020.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 20
atatagttccctttcatattaaacaacgaaacgtttatttgttgtggttatgttattggtgttattctgtaaatatgattttcctgtgaatttt--tgatagTGCCAAACTCATTGACATCTATCGTACACGCCACAATATTAGTTCATCTACTGGTTTGAGTGATCCAGCTGTTGCCACTGGTATATCTGATCTTGTCTAT
|| || | |||| | | || ||| | | | || || || | || | | | | | | ||||| | | ||||| ||||| |||||||| ||||| |||||||||||||| ||| || | | ||||||||||||||||||||| || || || || ||||| ||||| |||
--ttaactcaagtctgtattgcttgattatttcttgttttaatcacatgcttttgttcgtttgctttttttttttctctgatagaattcattttgttaacagTGCAAAACTTATTGACATTTATCGCACACGCCACAATATAAGTGCAACAAGTGGTTTGAGTGATCCAGCTGTCGCTACAGGAATTTCTGACCTTGTTTATMapped 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|13477466|gb|BG507344.1|BG507344EST: TTGTTTTGTTATGTTCCAAGAACAAAGTATCTACCTTTGGGCCCAATAAG TGCCAAACTCATTGACATCTATCGTACACGCCACAATATTAGTGCATCTAC
genomic: TTGTTTTGTTATGTTCCAAGAACAAAGTATCTGCCTTTGGGCCCAATAAGgtattgatat ... tttttgatagTGCCAAACTCATTGACATCTATCGTACACGCCACAATATTAGTTCATCTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttatgttattggtgttattctgtaaatatgattttcctgtgaatttttgatagTGCCAAACTCATTGACATCTATCGTACACGCCACAATATTAGTTCATCTACTGGTTTGAGTGATCCAGCTGTTGCCACTGGTATATCTGATCTTGTCTAT
ttttt CT-rich tract
ttattctgtaaatatg TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatagttccctttcatattaaacaacgaaacgtttatttgttgtggttatgttattggtgttattctgtaaatatgattttcctgtgaatttttgatagTGCCAAACTCATTGACATCTATCGTACACGCCACAATATTAGTTCATCTACTGGTTTGAGTGATCCAGCTGTTGCCACTGGTATATCTGATCTTGTCTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - ccctttc
- - - - - - - - - - - - aacgaaac
- - - - - - - - - - - - - - - - - - - - gttgtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - attggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgta