Sequence
atgc intronic sequence ATGC exonic sequenceTCGAATTCTTGGCTTAGGTGACCTTGGAGTTCAGGGAATTGGAATCCCCATAGGAAAACTTGATGTGTATGTTGCTGCCGCTGGTATCAACCCACAAAGAgtatgcttctttttatctccatgtaactattttttatcccgatctctggctgtttttgtctcattgtttgctgacatacatctggtgggagttacttatg...
Basic information
species | Glycine max |
transcript | GLYMA03G01680.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G01680.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os10g35960.2 (Oryza sativa), 5'ss of exon 5
TCGAATTCTTGGCTTAGGTGACCTTGGAGTTCAGGGAATTGGAATCCCCATAGGAAAACTTGATGTGTATGTTGCTGCCGCTGGTATCAACCCACAAAGAgtatgcttctttttatctccatgtaac----tattttttatcccgatctctggctgt-ttttgtctcattgttt-gctgacatacatctggtgggagttacttatg
|| ||||| || ||||||| |||||||||||||| || || || || || || ||||||||||| |||||||| || ||||||||||| ||||||| || || | | | |||| | | || || | | | | ||| | ||||||| | | | | | | ||| |
CCGTATTCTAGGTCTAGGTGATCTTGGAGTTCAGGGCATAGGTATACCTATCGGTAAACTTGATGTTTATGTTGCCGCTGCTGGTATCAATCCACAAAAGgtttgtaatatactcttcccatctggcacagtaagagaaatgaccacgaagaaatatgtttccacacattgttccaacaagacataacagccaagagaaa------
upper sequence: GLYMA03G01680.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G085747_T02 (Zea mays), 5'ss of exon 5
TCGAATTCTTGGCTTAGGTGACCTTGGAGTTCAGGGAATTGGAATCCCCATAGGAAAACTTGATGTGTATGTTGCTGCCGCTGGTATCAACCCACAAAGAgtatg---cttctttttatctccatgtaactattttttatcccgatctctggctgtttttgtctcattgtttgctgacatacatctgg-tgggagttacttatg---------------------------------------------------------------------------
||| ||||| ||||||||||||||||| |||||||| || || || || || || ||||| ||||| |||||||| || |||||||| |||||||| | ||||| | || | || || || ||| | | | | || | |||| | | || || | | | | | | ||| | || |
TCGCATTCTAGGCTTAGGTGACCTTGGTGTTCAGGGCATAGGTATACCTATTGGTAAACTGGATGTTTATGTTGCAGCTGCTGGTATTAACCCACAGAAGgtatggaacatcctgataactgtctgaaacgacatcagttacttata---aattacttttatgt--ttactttatagaacatagcgaactaggaaccagttttattcaatatagcctgctgtttatggcatacctttttcatatttttctgctctctgagaatacatttgtgcttgcag
upper sequence: GLYMA03G01680.1 (Glycine max), 5'ss of exon 6
lower sequence: AT4G00570.1 (Arabidopsis thaliana), 5'ss of exon 5
TCGAATTCTTGGCTTAGGTGACCTTGGAGTTCAGGGAATTGGAATCCCCATAGGAAAACTTGATGTGTATGTTGCTGCCGCTGGTATCAACCCACAAAGAgtatgct--tctttttatctccatgtaactattttttatcccgatct--ctggct--gtttttgtctcattgtttgctgacatacatctggtgggagttacttatg
|| ||| | |||||||| ||||||||||| ||||||||||| || || || ||||| || || ||||||| ||||| || || ||||| ||||| |||||||| | ||| || | ||| | |||||| | | | || || | ||| ||| || || |||| || | |
CCGTATTTTGGGCTTAGGAGACCTTGGAGTACAGGGAATTGGGATTCCTATTGGAAAGCTCGACATGTATGTCGCTGCTGCAGGAATCAATCCACAGAGAgtatgttgatctccacatgatcttgtgtgtgtttttttgtttgctgtacctaactaaggtttcacctccttattcaaaattatacgcttgttcctctgcag-----
upper sequence: GLYMA03G01680.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv15s0046g03670.t01 (Vitis vinifera), 5'ss of exon 5
TCGAATTCTTGGCTTAGGTGACCTTGGAGTTCAGGGAATTGGAATCCCCATAGGAAAACTTGATGTGTATGTTGCTGCCGCTGGTATCAACCCACAAAGAgtatg-------cttctttttatctccatgtaactattttt-tatcccgatctctg-gctgtttttgtctcattgtttgctgacatacatctggtgggagttacttatg
||| |||||||| | ||||||||||||||||||||||||||||| || || || ||||||||| ||||||||||||| ||||||||||| ||||| |||||||| | || || | | | ||||| ||| || || || | | | | | | ||| ||| ||| ||| || | |
TCGTATTCTTGGTCTGGGTGACCTTGGAGTTCAGGGAATTGGAATTCCTATTGGGAAACTTGATATGTATGTTGCTGCTGCTGGTATCAATCCACAGAGAgtatgtgcagctcctcattctgtgtgcatgtgcatatgttcatacacctttttaagcacaaacacaggcacatggttc-ctggatgacaaaggggaagtgc--------
upper sequence: GLYMA03G01680.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ19450 (Selaginella moellendorffii), 5'ss of exon 5
TCGAATTCTTGGCTTAGGTGACCTTGGAGTTCAGGGAATTGGAATCCCCATAGGAAAACTTGATGTGTATGTTGCTGCCGCTGGTATCAACCCACAAAGAgtatgcttctttttatctccatgtaactattttttatcccgatctctggc-tgtttttgtctcattgtttgctgacatacatctggtgggagttacttatg
||| ||| | || | ||||||||||| ||||| || || || || || || ||||||||||| ||||||||||||||||||| ||||||| ||| ||||| | || | || ||| | || | ||| | || | | | | || | | |
TCGGATTTTGGGGCTCGGTGACCTTGGCGTTCAAGGCATAGGGATTCCAATTGGAAAACTTGACTTGTATGTTGCTGCCGCTGGATTCAACCCGCAACGAgtaag--tcaatgtagctcttttaaagtttttgtcctcacactgtgtaatgtgctatag------------------------------------------
upper sequence: GLYMA03G01680.1 (Glycine max), 5'ss of exon 6
lower sequence: EFJ21048 (Selaginella moellendorffii), 5'ss of exon 5
TCGAATTCTTGGCTTAGGTGACCTTGGAGTTCAGGGAATTGGAATCCCCATAGGAAAACTTGATGTGTATGTTGCTGCCGCTGGTATCAACCCACAAAGAgtatgcttctttttatctccatgtaactattttttatcccgatctctggc-tgtttttgtctcattgtttgctgacatacatctggtgggagttacttatg
||| ||| | || | ||||||||||| ||||| || || || || || || ||||||||||| ||||||||||||||||||| ||||||| ||| ||||| | || | || ||| | || | ||| | || | ||| | || | | |
TCGGATTTTGGGGCTCGGTGACCTTGGCGTTCAAGGCATAGGGATTCCAATTGGAAAACTTGACTTGTATGTTGCTGCCGCTGGATTCAACCCGCAACGAgtaag--tcaatgtagctcttttaaagtttttgtcctcacactctgtaatgtgctatag------------------------------------------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|151395881|gb|EV265758.1|EV265758EST: TAGGAAAACTTGATGTGTATGTTGCTGCCGCTGGTATCAACCCACAAAGA ATACTTCCAGTTATGCTGGATGTTGGCACCAACAATCAAAAGTTACTTGAA
genomic: TAGGAAAACTTGATGTGTATGTTGCTGCCGCTGGTATCAACCCACAAAGAgtatgcttct ... taactgacagATACTTCCAGTTATGCTGGATGTTGGCACCAACAATCAAAAGTTACTTGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCGAATTCTTGGCTTAGGTGACCTTGGAGTTCAGGGAATTGGAATCCCCATAGGAAAACTTGATGTGTATGTTGCTGCCGCTGGTATCAACCCACAAAGAgtatgcttctttttatctccatgtaactattttttatcccgatctctggctgtttttgtctcattgtttgctgacatacatctggtgggagttacttatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgggag