Sequence
atgc intronic sequence ATGC exonic sequence...tttacagtttttaagctgttactaaatttagttggaagtatactttgtaagatatatactaattctccattttaatttttatggttcaatttgcttgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG
Basic information
species | Glycine max |
transcript | GLYMA13G43680.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 3'ss of exon 8
tttacagtttttaagctgttactaaatttagttggaagtatactttgtaagatatatactaattctccattttaat--ttttatggttcaatttgctt-gcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG
| | ||| | || |||| | | | | | || | ||| || ||| | | | || | | |||| || ||||| || | || ||||||||||| ||||||||||||||||| ||||||||||| |||||||| ||||| |||| | |
tggaatatttgttagttgttggcag-ctcactacttaatac-ttatgtcagttatg-attgccacaatgttgaggtgttcttattttttaatttattttgtagACTTGAGAACACGCTAAACTATGGTCTTGAACGAGTCTGGGCTGTTGGATACATGAAGGGTTCAAGAAG
upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G419984_T01 (Zea mays), 3'ss of exon 7
tttacagtttttaagctg-ttactaaatttagttggaagtatactttgtaagat-atatactaattctccattttaatttttatggttcaatttgcttgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG
| | || || || || || || | | | |||| ||| | |||| || | ||| ||| ||| || || | || || |||||||||||| |||||||||| ||||| |||||||||||| |||||||| ||||| | ||| | |
ggaaaatgttctatactaatttctgaacgccacttgtgttgctctttataatctcatatcctgagatgtt-ctttgttttatatc-ttgaactattctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG
upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G095348_T02 (Zea mays), 3'ss of exon 7
tttacagtttttaagctgttactaaatttagttggaagtatactttgtaagat-atatactaattctccattttaatttttatggttcaatttgcttgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG
|| | | | || | | | | | | || |||| ||| | ||| | | | ||| ||| || | | | | ||| || |||||||||||| |||||||||| ||||| |||||||||||| |||||||| ||||| | || | |
-atatcctatactggttgagtccgagtgctgcttgtgttactctttataatttcataatcctaaggtgttctttgttttatactttgaactatttttgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGATCAAGAAG
upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G000645_T02 (Zea mays), 3'ss of exon 8
-tttacagt-ttttaagctg-ttactaaatttagttggaagtatactttgtaagatatatactaattctccattttaatttttatggttcaatttgcttgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG
| | | | || || ||| || || || | | | |||| ||| | || || | ||| ||| ||| || || | || || |||||||||||| |||||||||| ||||| |||||||||||| |||||||| ||||| | ||| | |
ctggaaaatgttctatactgatttctgaacgccacttgtgttgctctttataatct-catcctgagatgtt-ctttgttttatatc-ttgaactattctgtagACTTGAGAACACACTAAACTATGGCCTTGAGAGAGTCTGGGCTGTTGGATACATGAAGGGGTCTAGAAG
upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 8
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 8
---------------------------------------------------------------------------tttacagttt--ttaagctgttactaaatttagttggaagtat--actttgtaagatatatactaattctccattttaattttt--atggttcaatttgcttgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG
| | || ||| | | || | | || | | || | || | | | ||| || ||||| ||| | ||| |||||||||| ||||||||||| || ||||| ||||| ||||||||||| ||||| ||| | || ||||| || ||
gtattataatattaaacagtttttttttgttggacatattatagtaaacgcttcttgtatgccttggctaaaccatctccactttggcttcattcttg-tgcactttttcaccattaccaatttcttttattgtccttccatttgtaatcccaatttcctaatgtctgttttttcttgcagGCTAGAGAACACATTGAATTATGGCCTTGAGAGAGTCTGGGCAATTGGTTACATTAAAAGTTCACGCCG
upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 8
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 12
------------tttacagtttttaagctgttactaaatttagttggaagtatactttgtaagatatatactaattctccattttaatttttatggttcaat---ttgcttgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG
| | | || ||||| || | | ||| | || | |||| | || | | || ||| ||| | ||| | | ||| | | | ||||||||||| ||||| |||||||| ||||| || || |||||||||||| || | || |||| || ||
gtaactcgtatgctgtctgcattggagctgctattgattttgtctttaa--aaacttccttcaatttttcaaaaatcttcatccaacagttttttacttaatacttgacatctagGCTTGAGAATACATTGAACTATGGCCTTGAGAGGGTTTGGGCTATTGGACACATTAAAGGTTCACGCCG
upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 8
tttacagtttttaagctgttact---aaatttagttggaagtatactttgtaagatatatactaattctccattttaatttttatggttcaatttg----cttgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG
| || | | ||| || || |||| || | || | | | | | | | | ||| ||||||||||| | | || ||||||||| ||||||||||| ||||| |||||| |||| ||||| | |||| ||| |||| || ||
-----aaattgtgatgtgtgcctcataagtttacttatttatttatctattca--tctttgcctaatcttaattttaattttgttaaccatgctcagcaatttacagGCTTGAAAACACATTAAATTATGGACTTGAACGAGTTTGGGCCCTGGGATGTATGAGAGGTTCACGACG
upper sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 8
tttacagtttttaagctgttactaaatttagttggaagtatactttgtaagatatatactaattctccatttt----aatttttatggttcaatttgcttgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG
| || |||| | | || || | | || | || | ||| ||| ||| | | |||| | | | | || | |||||| |||||||| || || ||||||||||||||||| |||||| |||||||| |||| |||| || ||
-tgttttttcttaatgtagtgatagat---gatagatgattaaacctttagagttatgctagtctttaatttccgacagactgaaccttcttcattaactacagGCTCGAGAACACGTTGAATTATGGTCTTGAAAGAGTTTGGGCTGTTGGATACATGAAAGGTTCACGCCGMapped 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|9987279|gb|BE661387.1|BE661387EST: ACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAG GCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATA
genomic: ACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgtaatgtgaa ... ttgcttgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaagatatatactaattctccattttaatttttatggttcaatttgcttgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG
tttgctt CT-rich tract
atatatactaattctc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttacagtttttaagctgttactaaatttagttggaagtatactttgtaagatatatactaattctccattttaatttttatggttcaatttgcttgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATACTTGAAGAGTTCTCGTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - gctgtta