Sequence
atgc intronic sequence ATGC exonic sequencegtaattgattttttttttctattattgttttttcttatcttacttgactggattttctatttgttattaagttcttttctactctttctagGTCCCTGCTGATGGAGTTCTGATCACTGGCCACTCTCTTGCAATTGATGAATCAAGTATGACTGGGGAGAGCAAAATT
Basic information
species | Glycine max |
transcript | GLYMA09G06890.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G06890.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g08018.1 (Oryza sativa), 3'ss of exon 6
--gtaattgattttttttttctattattgtttt-ttcttatcttacttgactggattttctatttgttattaagttcttttctactctttctagGTCCCTGCTGATGGAGTTCTGATCACTGGCCACTCTCTTGCAATTGATGAATCAAGTATGACTGGGGAGAGCAAAATT
||| | | | ||| | ||| || | | || | | ||||| |||| | | | ||| | || |||||||| |||||||| ||| || | | ||| || |||||||| ||||||||||| |||||||||||||| ||||| ||
gtaagattatgtaaatccatgcattctgatttgatttatgttctatgctgtttgtatttctgag-attataatgaaactaaatacaccttttagGTCCCGGCTGATGGTGTTTTGGTTAGTGGTCATTCTCTTGCCATTGATGAATCCAGTATGACTGGGGAAAGCAAGATC
upper sequence: GLYMA09G06890.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G140328_T02 (Zea mays), 3'ss of exon 9
gtaattgattttttttttctattattgttttttcttatcttacttgactggattttctatttgttattaagttcttttctactctttctagGTCCCTGCTGATGGAGTTCTGATCACTGGCCACTCTCTTGCAATTGATGAATCAAGTATGACTGGGGAGAGCAAAATT
||| | | | || | | ||||| | | | || || ||||| | || | | | | | | || | |||||||||||||||| | || |||| ||||||||||||| | || ||||||||||| ||||| || || || ||||||
gtagagaaggccactgagc-atgagcctcatttctgag-tcatgtgtcta---cttctaaattctaaggataccctatttttttttgccagGTCCCTGCTGATGGTATCCTTATCAATGGCCACTCTCTTTCCATAGATGAATCAAGCATGACGGGAGAAAGTAAAATT
upper sequence: GLYMA09G06890.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G57110.2 (Arabidopsis thaliana), 3'ss of exon 10
gtaattgatttttttt--ttctattattgttttttcttatcttacttgactggattttctatttgttattaagttcttttctactctttctagGTCCCTGCTGATGGAGTTCTGATCACTGGCCACTCTCTTGCAATTGATGAATCAAGTATGACTGGGGAGAGCAAAATT
|| | || ||| || | || || | |||||||| || |||| || |||| | | ||||| | || | ||||||| |||||||||||||| ||||| ||||||||||||| || |||||||||| || |||||||| ||||||||||||
gtgagtggtttattctccttttaattttgtttttgtccatattacc--------ttgtctaatcg-----aagtttaaattta---tatctagGTTCCTGCTGATGGAGTACTGATATCTGGCCACTCTCTCGCCCTTGATGAATCTAGCATGACTGGAGAGAGCAAAATT
upper sequence: GLYMA09G06890.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 11
gtaattgattttttttttctattattgttttttcttatcttact-----tgactggattttctatttgt-----tattaagttcttttctactctttctagGTCCCTGCTGATGGAGTTCTGATCACTGGCCACTCTCTTGCAATTGATGAATCAAGTATGACTGGGGAGAGCAAAATT
||| |||||| || ||||| | | || | || || | | ||| |||| | |||| | | | | | | |||| ||||||||||||||||| || |||| |||| |||||||||||||||||||||||||| |||||||| |||||||| |||
-taaaagattttagattgatattaatatattatgcagagaaacaaacagtgttttgtccttcaatttttatatttatttaacattatccaattttttcaagGTCCCTGCTGATGGAATTTTGATTTCTGGTCACTCTCTTGCAATTGATGAATCAAGCATGACTGGAGAGAGCAAGATTMapped 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|193325935|gb|FK291018.1|FK291018EST: TATATGATATTGTTGTTGGGGATGTTATACCCCTTAATATTGGTAACCAG GTCCCTGCTGATGGAGTTCTGATCACTGGCCACTCTCTTGCAATTGATGAA
genomic: TATATGATATTGTTGTTGGGGATGTTATACCCCTTAATATTGGTAACCAGgtaattgatt ... ctctttctagGTCCCTGCTGATGGAGTTCTGATCACTGGCCACTCTCTTGCAATTGATGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcttacttgactggattttctatttgttattaagttcttttctactctttctagGTCCCTGCTGATGGAGTTCTGATCACTGGCCACTCTCTTGCAATTGATGAATCAAGTATGACTGGGGAGAGCAAAATT
ttcttttctactcttt CT-rich tract
attttctatttgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattgattttttttttctattattgttttttcttatcttacttgactggattttctatttgttattaagttcttttctactctttctagGTCCCTGCTGATGGAGTTCTGATCACTGGCCACTCTCTTGCAATTGATGAATCAAGTATGACTGGGGAGAGCAAAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA