Sequence
atgc intronic sequence ATGC exonic sequence...gacatttggaatcatgctttcaccagcctatgattgtgtgtgctttcattattgctccattggatttcaaacaataagacatgagatcatctgtctgcagTTGTGCGGCTTATGGGGCGTGCAGCTTCACACATTACGCTGGAATGTGCCTTACAAACTCATCCAAACATTACTATTATTGGAGAAGAG
Basic information
species | Glycine max |
transcript | GLYMA15G11890.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G059151_T01 (Zea mays), 3'ss of exon 7
gacatttggaatcatgctttcaccagcctatgattgtgtgtgctttcattattgctccattggatttcaaacaataagacatgagatcatctgt--ctgcagTTGTGCGGCTTATGGGGCGTGCAGCTTCACACATTACGCTGGAATGTGCCTTACAAACTCATCCAAACATTACTATTATTGGAGAAGAG
|| | || | || || || || | | |||| | || || || || || | | || || |||||||||| |||||||||| ||||| ||||| ||||||||||||||||| || || ||||| || || || | | | ||||| ||||||
-gcagtgctaa-cgtgtagtccatgaatattggaagtatataacagaattacagatcggacattttgtcaataaaaattctaacaagcacttgctcttgcagTTGTGAGGCTTATGGGTCGTGCTGCTTCTCACATTACGCTGGAATGCGCTTTGCAAACACACCCCAATGCTGCACTCATTGGGGAAGAG
upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G04040.1 (Arabidopsis thaliana), 3'ss of exon 7
gacatttggaatcatgctttcaccagcctatgattgtgtgtgctttcattattgctccattggatttcaaacaataagacatgagatcatctgtctgcagTTGTGCGGCTTATGGGGCGTGCAGCTTCACACATTACGCTGGAATGTGCCTTACAAACTCATCCAAACATTACTATTATTGGAGAAGAG
| || || |||| | || | || | | | || | | | || ||| || | ||| |||| || ||||||||| |||||||| ||||| ||||| |||||||| || ||||| || || ||||| |||||||||||||| |||||||||||||||
-------gtaagtttgttttctct----tagcaaaatgaattttcttgatacaaatttact--atatcatttcatctgtt----gattatct--ctatagTTGTGCGTCTTATGGGTCGTGCTGCTTCTCACATTACACTTGAATGCGCTTTGCAAACCCATCCAAACATTACCATTATTGGAGAAGAG
upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G12000.1 (Arabidopsis thaliana), 3'ss of exon 7
gacatttggaatcatgcttt-caccagcctatgattgtgtgtgctttcattattgctccattggatttcaaacaataagacatgagatcatctgtctgcagTTGTGCGGCTTATGGGGCGTGCAGCTTCACACATTACGCTGGAATGTGCCTTACAAACTCATCCAAACATTACTATTATTGGAGAAGAG
| ||| || || | ||| || | |||| | ||| | ||| | || || | || |||| | | ||||||||| | |||||||| ||||| ||||| ||||||||||| || ||||| ||||||||||| |||||||| || |||||||||||||||
-----gtaagtaaatgtttaacaaaatttcttgaagttgcatcatttctattgtgccctatttgtttacatgctgtatcacat-------tttcattgcagTTGTAAGACTTATGGGTCGTGCTGCTTCCCACATTACGCTTGAGTGTGCTTTACAAACTCACCCAAACATAACCATTATTGGAGAAGAG
upper sequence: GLYMA15G11890.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 3'ss of exon 7
gacatttggaatc----atgctttcaccagcctatgattgtgtgtgctttcattattgctccattggatttcaaacaataagacatgagatcatctgtctgcagTTGTGCGGCTTATGGGGCGTGCAGCTTCACACATTACGCTGGAATGTGCCTTACAAACTCATCCAAACATTACTATTATTGGAGAAGAG
|||| | || ||||| | | | | || | ||| | | || | || |||| || || | | | | || | ||||||| || ||||||||||||||||| ||||||||||| |||| ||||| || |||||||||||||||||||| |||||||| ||||||
--gatttcaactcttttatgctccaatttacatttccttatttgttttatttcctttcttttatatgattgtaagtggtatt-tgtatgtttgtgtgcat-cagTTGTACGACTTATGGGGCGTGCAGCCTCACACATTACATTGGAGTGTGCTTTGCAAACTCATCCAAACATTACAATTATTGGTGAAGAGMapped 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|17021880|gb|BM092914.1|BM092914EST: GATTGGAAATGTTATGATAGATGCCCGATCAACTGGAAAATATTACCATT TTGTGCGGCTTATGGGGCGTGCAGCTTCACACATTACGCTGGAATGTGCCT
genomic: GATTGGAAATGTTATGATAGATGCCCGATCAACTGGAAAATATTACCATTgtaagtacat ... ctgtctgcagTTGTGCGGCTTATGGGGCGTGCAGCTTCACACATTACGCTGGAATGTGCCT
EST:
gi|12773861|gb|BG238788.1|BG238788EST: GATTGGAAATGTTATGATAGATGCCCGATCAACTGGAAAATATTACCATT TTGTGCGGCTTATGGGGCGTGCAGCTTCACACATTACGCTGGAATGTGCCT
genomic: GATTGGAAATGTTATGATAGATGCCCGATCAACTGGAAAATATTACCATTgtaagtacat ... ctgtctgcagTTGTGCGGCTTATGGGGCGTGCAGCTTCACACATTACGCTGGAATGTGCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcattattgctccattggatttcaaacaataagacatgagatcatctgtctgcagTTGTGCGGCTTATGGGGCGTGCAGCTTCACACATTACGCTGGAATGTGCCTTACAAACTCATCCAAACATTACTATTATTGGAGAAGAG
tctgtct CT-rich tract
atttcaaacaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gacatttggaatcatgctttcaccagcctatgattgtgtgtgctttcattattgctccattggatttcaaacaataagacatgagatcatctgtctgcagTTGTGCGGCTTATGGGGCGTGCAGCTTCACACATTACGCTGGAATGTGCCTTACAAACTCATCCAAACATTACTATTATTGGAGAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - -tcatgct
- - - - - - - - - ttcacca
- - - - - - - - - - - - - cctatga
- - - - - - - - - - - - - - - - - -gtgtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - tgctcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatgag