Sequence
atgc intronic sequence ATGC exonic sequenceTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTTCAGACTCACTGAAgtaagttcatgtaaccgtatttcaattgcgatattactttttatatgatctcttatattgttatttgatttcag
Basic information
species | Glycine max |
transcript | GLYMA01G41800.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G41800.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os02g01490.1 (Oryza sativa), 5'ss of exon 8
TGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTTCAGACTCACTGAAgtaagt---tcatgtaaccgtatttcaattgcgatattact-ttttatatgatctcttatattgttatttgatttcag----------------
|| |||| || ||||| | || ||| || ||||||||||||||||| |||||||||| ||||| || |||||||| | |||| | || || ||| ||| || | || | | | ||| | | | | || | | ||| | || ||| ||
TGCTTGGTAATTCTCAATATATCCTGCTACCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGCGGAAGTGGGAAGGGTTGCTGATTCTTTGAGgtatgttgttgatttgtgcatggccagcaaatgatttcaatgctatacctaaactcctgctttcacattatgacccatttgaatctccttaaag
upper sequence: GLYMA01G41800.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G163277_T01 (Zea mays), 5'ss of exon 8
TGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTTCAGACTCACTGAAgtaagttcatg---taaccgtatttcaattgcgatat-tactttttata---tgatctcttatattgttatttgatttcag--------------
|| |||| || ||||||| || | | || ||||||||||||||||| |||||||||| ||||| | |||||||||||||||||| || || ||| ||| ||| || | | || || | | |||| || || || || ||||| || || |
TGCTTGGTAATTCTCAGTATATCCTACTACCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGTTGAAGTGGGGAAGGTTTCTGATTCTTTGAGgtaggttgttggcttgttcataacaagcaaatgacacgtgctttccctagcttgtacttgtacattgtgatacagttgaatataaacttctctag
upper sequence: GLYMA01G41800.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G107218_T01 (Zea mays), 5'ss of exon 3
TGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTTCAGACTCACTGAAgtaagttcatg---taaccgtattt--caattgcgatattactttttatatgat---ctcttatattgttatttgatttcag------------
|| |||| || ||||| | || | | | ||||||||||||||||| |||||||||| ||||| | ||||||||||| ||||| || || ||| ||| ||| || | | || ||| ||| | | | |||| ||| | || || ||| | | || |
TGCTTGGTAATTCTCAATATATCCTACTATCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGATTCTTTGAGgtaggttgttggcctgttcataacaagcaaatgccacaatcctttccctatcttgtacttgtacattataaagcagttgtattaacttctctag
upper sequence: GLYMA01G41800.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G480185_T01 (Zea mays), 5'ss of exon 3
TGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTTCAGACTCACTGAAgtaagttcatg---taaccgtattt--caattgcgatattactttttatatgat---ctcttatattgttatttgatttcag------------
|| |||| || ||||| | || | | | ||||||||||||||||| |||||||||| ||||| | ||||||||||| ||||| || || ||| ||| ||| || | | || ||| || | | | |||| ||| | || || ||| | | || |
TGCTTGGTAATTCTCAATATATCCTACTATCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGATTCTTTGAGgtacgttgttggcctgttcataacaagcaaatgacacaatcctttccctatcttgtacttgtacattataacgcagttgaattaacttctctag
upper sequence: GLYMA01G41800.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G429241_T01 (Zea mays), 5'ss of exon 8
TGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTTCAGACTCACTGAAgtaagttcatg---taaccgtattt--caattgcgatattactttttatatgat---ctcttatattgttatttgatttcag------------
|| |||| || ||||| | || | | | ||||||||||||||||| |||||||||| ||||| | ||||||||||| ||||| || || ||| ||| ||| || | | || ||| || | | |||| ||| | || || ||| | | || |
TGCTTGGTAATTCTCAATATATCCTACTATCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGATTCTTTGAGgtaggttgttggcctgttcataacaagcaaatgacacgatcctttccctatcttgtacttgtacattataacgcagttgaattaacttctctag
upper sequence: GLYMA01G41800.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv00s0229g00030.t01 (Vitis vinifera), 5'ss of exon 8
TGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTTCAGACTCACTGAAgtaagttcatgtaaccgtatttcaattg-----cgatattactttttatatgatctcttatattgttatttgatttcag
|| ||||||||||||||||| | ||| |||||||||||||||||||||||||||||| ||| | ||||||| ||||| |||||||| ||| |||||||||||| |||| | ||| || || | ||| | |||| | || || |||| | | |||||
TGCTTGGAAACTCTCAGTTTGTTCTGCTACCATTTCAGCCATATAAGCTTATATATGCACACATGTTGGCTGAAGCAGGGAAAGTTTCAGAATCATTGAAgtaagttcttgtagtttttcttcttctgatgtttcatgcaattttgtgtatgcctttctaaat-gttaggttaattcagMapped 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|15814640|gb|BI786915.1|BI786915EST: ATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTTCAGACTCACTGAA GTACTGCCAAGCACTACTGAAATCCTTGAAAACTGGC
genomic: ATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTTCAGACTCACTGAAgtaagttcat ... ttgatttcagGTACTGCCAAGCACTACTGAAATCCTTGAAAACTGGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTTCAGACTCACTGAAgtaagttcatgtaaccgtatttcaattgcgatattactttttatatgatctcttatattgttatttgatttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG