Sequence
atgc intronic sequence ATGC exonic sequence...gcttgtatttgtttgaaattcaaaattgtctggtgagtttacaaatttgtatggtgtacaatgcttggcttcaaaagttgaatattacctctttgtgcagGCAGATTGAGATTGACAGCAAGTTCTTGGAATTACAACAGATAATGGATTACAGCCTCCTTCTAGGTGTTCATTATCGAGCTCCCCAGCAGTTGCATCCA
Basic information
species | Glycine max |
transcript | GLYMA13G20980.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G20980.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G374973_T01 (Zea mays), 3'ss of exon 6
----gcttgtatttgtttgaaattcaaaattgtctggtgagtttacaaatttgtatggtgtacaatgc-ttggcttcaaaagttgaatattacctctttgtgcagGCAGATTGAGATTGACAGCAAGTTCTTGGAATTACAACAGATAATGGATTACAGCCTCCTTCTAGGTGTTCATTATCGAGCTCCCCAGCAGTTGCATCCA
|| || ||| | | ||| ||| || || || ||| || | |||| ||| | | | ||| | || | | | |||||||||||| | || || | || ||| | ||| | |||||||||||||||||| || || ||||| |||||| ||||||| ||||| |||| ||
gtgagcacgt-tttctctaaaaatcatgttt--cttatgtgttctg----ttatgtggt-cacattacactcatctcagatactgttcactgttctt-----cagGCAGATTGAAACAGATAGTGATTTTTTGAGAACACAGCGGATAATGGATTACAGCCTACTGCTTGGTGTCCATTATAGAGCTCCACAGCACTTGCGGACA
upper sequence: GLYMA13G20980.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G050309_T01 (Zea mays), 3'ss of exon 6
gcttgtatttgtttgaaattcaaaattgtctggtgagtttacaaatttgtatggtgtacaatgcttggcttcaaaagttgaatattacctctttgtgcagGCAGATTGAGATTGACAGCAAGTTCTTGGAATTACAACAGATAATGGATTACAGCCTCCTTCTAGGTGTTCATTATCGAGCTCCCCAGCAGTTGCATCCA
| | || | || | | || || | || | | | ||| | | | ||| || ||| || |||| | ||| |||||||| | ||||| | || ||| | ||| | |||||||||||||||||| || || ||||| |||||| ||||||| ||||| |||| ||
gtgagcatattttc----tctagaaatgatgtttatgtgttctgttatgtgacg-acattacacttatctcaaaatactgttgattattctt-----cagACAGATTGAAACAGACAGTGATTTTTTGAGAACACAGCGGATAATGGATTACAGCCTACTGCTTGGTGTCCATTATAGAGCTCCACAGCACTTGCGGACA
upper sequence: GLYMA13G20980.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0007g04700.t01 (Vitis vinifera), 3'ss of exon 5
gcttgtatttgtttgaaattcaaaattgtctggtgagtttacaaatttgtatggtg-tacaatgcttggcttcaaaagttgaatattacctctttgtgcagGCAGATTGAGATTGACAGCAAGTTCTTGGAATTACAACAGATAATGGATTACAGCCTCCTTCTAGGTGTTCATTATCGAGCTCCCCAGCAGTTGCATCCA
|| | |||| || || | || | | ||| | ||| || | | | | |||| | || ||||| ||||||||||||||||||||||| || || |||||| ||| || || |||||||| ||||| | || ||||| ||||||||||| ||||| || ||| |
gcata-gtttggctgcaagtgaatgtcaggtatgtagtctcttttcttgcatatcaatgctcctgtcattggttatagtttccttgtatatctttatgcagGCAGATTGAGATTGACAGTAAATTTTTGGAAGCACAGCACATTATGGATTATAGCCTTTTACTGGGTGTGCATTATCGAGCCCCCCAACATCTGCGGTCT
upper sequence: GLYMA13G20980.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ12524 (Selaginella moellendorffii), 3'ss of exon 5
gcttgtatttgtttgaaattcaaaattgtctggtgagtttacaaatttgtatggtgtacaatgcttggcttcaaaagttgaatattacctctttgtgcagGCAGATTGAGATTGACAGCAAGTTCTTGGAATTACAACAGATAATGGATTACAGCCTCCTTCTAGGTGTTCATTATCGAGCTCCCCAGCAGT-TGCATCCA
|| || ||| | ||| | | | || ||| ||||||| || ||| ||| ||||||||||||||| |||| |||||||||||||||| | || || || || |||| ||| ||||| ||| ||| |
----------------------------------------gtaagagcacattaacagcaacgtttgat------aatcagactttgttgctt---gcagGCAAATAGAGCAGGACTGCAAGTTCTTGGAATCACAAAGGATAATGGATTACAGCTTGCTGCTGGGAGTCCATTTTCGCGCTCCTCAGTGCCCTGCCGTC-
upper sequence: GLYMA13G20980.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ10247 (Selaginella moellendorffii), 3'ss of exon 6
gcttgtatttgtttgaaattcaaaattgtctggtgagtttacaaatttgtatggtgtacaatgcttggcttcaaaagttgaatattacctctttgtgcagGCAGATTGAGATTGACAGCAAGTTCTTGGAATTACAACAGATAATGGATTACAGCCTCCTTCTAGGTGTTCATTATCGAGCTCCCCAGCAGT-TGCATCCA
|| | | ||| | ||| | | | || ||| ||||||| || ||| ||| ||||||||||||||| |||| |||||||||||||||| | || || || || |||| ||| ||||| ||| ||| |
----------------------------------------gtaagagcacagtgacagcaacgtttgat------aatcagactttgttgctt---gcagGCAAATAGAGCAGGACTGCAAGTTCTTGGAATCACAAAGGATAATGGATTACAGCTTGCTGCTGGGAGTCCATTTTCGCGCTCCTCAGTGCCCTGCCGTC-Mapped 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|193634667|gb|FK584330.1|FK584330EST: CTGAACTACTGCTTTTACTTGGAACCATCTTGGCGGGAGTCTTTATTGAA GCAGATTGAGATTGACAGCAAGTTCTTGGAATTACAACAGATAATGG
genomic: CTGAACTACTGCTTTTACTTGGAACCATCTTGGCGGGAGTCTTTATTGAAgtaaggttat ... ctttgtgcagGCAGATTGAGATTGACAGCAAGTTCTTGGAATTACAACAGATAATGG
EST:
gi|193557647|gb|FK511960.1|FK511960EST: GGCGGGAGTCTTTATTGAA GCAGATTGAGATTGACAGCAAGTTCTTGGAATTACAACAGATAATGGATTA
genomic: GGCGGGAGTCTTTATTGAAgtaaggttat ... ctttgtgcagGCAGATTGAGATTGACAGCAAGTTCTTGGAATTACAACAGATAATGGATTA
EST:
gi|5760794|gb|AI966157.1|AI966157EST: CTTGGAACCATCTTGGCGGGAGTCTTTATTGAA GCAGATTGAGATTGACAGCAAGTTCTTGGAATTACAACAGATAATGGATTA
genomic: CTTGGAACCATCTTGGCGGGAGTCTTTATTGAAgtaaggttat ... ctttgtgcagGCAGATTGAGATTGACAGCAAGTTCTTGGAATTACAACAGATAATGGATTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgtatggtgtacaatgcttggcttcaaaagttgaatattacctctttgtgcagGCAGATTGAGATTGACAGCAAGTTCTTGGAATTACAACAGATAATGGATTACAGCCTCCTTCTAGGTGTTCATTATCGAGCTCCCCAGCAGTTGCATCCA
ttacctcttt CT-rich tract
aaaagttgaatatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttgtatttgtttgaaattcaaaattgtctggtgagtttacaaatttgtatggtgtacaatgcttggcttcaaaagttgaatattacctctttgtgcagGCAGATTGAGATTGACAGCAAGTTCTTGGAATTACAACAGATAATGGATTACAGCCTCCTTCTAGGTGTTCATTATCGAGCTCCCCAGCAGTTGCATCCA
gcttgta
- - - - ttgtttg
- - - - - - - - - - - - - - tctggtg
- - - - - - - - - - - - - - - - - - - - - - - - -tatggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - caatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggcttc