Sequence
atgc intronic sequence ATGC exonic sequenceGATGTATTTGACCTTCCTTTTCACATGGCCAGAGATCAAATAGAAGAAAGTCTTCGCAACAAAATGGCTTCTATAAAGgtaattacttattagtatcactttccaatttgtatcttttaagtatttgcagatatgaactgtttgtctttggttgttaactgcttgaaaattgaaatatgaag
Basic information
species | Glycine max |
transcript | GLYMA17G07040.2 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G07040.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G147500_T02 (Zea mays), 5'ss of exon 11
GATGTATTTGACCTTCCTTTTCACATGGCCAGAGATCAAATAGAAGAAAGTCTTCGCAACAAAATGGCTTCTATAAAGgtaattacttattagtatcactttccaatttgtatcttttaagtatttg-cagatatgaactgtttgtctttggttgttaactgcttgaaaattgaaatatgaag
||||| |||||| | || ||||| |||||||||||||| |||||||| ||| | |||| |||||| |||| || |||||| | | | | | | | || | | ||||| | ||| ||| || || || || | | | || | | | ||
GATGTTTTTGACTTGCCCTTTCATATGGCCAGAGATCAGATAGAAGAGAGTTTGCGCACAAAAATGACTTCAATCAAGgtaggagcc-actggattgagactataagcatcgtacaattgctatttctcccatacacacttgttttcattacatgatga-taattatttctgatgacaaccag
upper sequence: GLYMA17G07040.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv11s0052g00890.t01 (Vitis vinifera), 5'ss of exon 12
GATGTATTTGACCTTCCTTTTCACATGGCCAGAGATCAAATAGAAGAAAGTCTTCGCAACAAAATGGCTTCTATAAAGgtaa-ttacttattagtatcactttccaatttgtatcttttaagtatttgcagatatgaactgtttgtctttggttgttaactgcttgaaaattgaaatatgaag
||||| ||||| | || || |||||||| ||||||||||||||||||||||| | || || ||| | |||||||||||| || || || || ||| | | ||| | || || | | | ||| ||| | | || | | | ||||||
GATGTCTTTGATTTGCCGTTCCACATGGCTAGAGATCAAATAGAAGAAAGTCTCAGAAATAAGATGACCTCTATAAAGgtaggttgtttttttctacatatttttatctcatatttcctattgataacaaaacctagactttttttgtaatatttatttttctgctgtatttgaaag------
upper sequence: GLYMA17G07040.1 (Glycine max), 5'ss of exon 12
lower sequence: PP1S145_44V6.1 (Physcomitrella patens), 5'ss of exon 12
GATGTATTTGACCTTCCTTTTCACATGGCCAGAGATCAAATAGAAGAAAGTCTTCGCAACAAAATGGCTTCTATAAAGgtaattacttattagtatcac--tttccaatttgtatcttttaagtatttgcagatatgaactgtttgtctttggttgttaactgcttgaaaattgaaatatgaag
|||||||||||||| || ||||||||||| ||||||||||| ||| ||||| | || |||||| || ||| ||||| | | || | | | | || ||| ||| |||| ||| | | | | | | | || || | | || | ||| |
GATGTATTTGACCTACCGTTTCACATGGCTAGAGATCAAATTGAACAAAGTTTACGTGCTAAAATGTCTATTATCAAGgtgagaa-ttgtcactcttacaacccccagcagctatattttggactgttgtattttaccgccgaatacttct--ttagaaagaaataaacaagtaaaacgag---
upper sequence: GLYMA17G07040.1 (Glycine max), 5'ss of exon 12
lower sequence: PP1S47_178V6.1 (Physcomitrella patens), 5'ss of exon 12
GATGTATTTGACCTTCCTTTTCACATGGCCAGAGATCAAATAGAAGAAAGTCTTCGCAACAAAATGGCTTCTATAAAGgtaattacttattagta--tcactttccaatttgtatcttttaagtatttgcagatatgaactgtttgtctttggttgttaactgcttgaaaattgaaatatgaag
|||||||||||||| |||||||| ||||| ||||||||||| ||| ||||| | || ||| ||| | |||| ||||||| | || || | | | || || || ||| | | | | | | || | | ||| | | || |||| || |
GATGTATTTGACCTACCTTTTCATATGGCAAGAGATCAAATTGAACAAAGTTTGCGTGCCAAGATGTCCACTATTAAGgtaagagtgttgcagctcctcccctattaccagatagctcttg-gtacgt-tatgttttaccaccgaacctcttctcaataagagat--aatccagaaaaataa--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|21256921|gb|BQ453809.1|BQ453809EST: CCAGAGATCAAATAGAAGAAAGTCTTCGCAACAAAATGGCTTCTATAAAG GAGCGTATGGTTCAATTGCAAGATGCTCAAAAAGAAGCAGAAGTTACTTCA
genomic: CCAGAGATCAAATAGAAGAAAGTCTTCGCAACAAAATGGCTTCTATAAAGgtaattactt ... aaatatgaagGAGCGTATGGTTCAATTGCAAGATGCTCAAAAAGAAGCAGAAGTTACTTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATGTATTTGACCTTCCTTTTCACATGGCCAGAGATCAAATAGAAGAAAGTCTTCGCAACAAAATGGCTTCTATAAAGgtaattacttattagtatcactttccaatttgtatcttttaagtatttgcagatatgaactgtttgtctttggttgttaactgcttgaaaattgaaatatgaag
- - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - AAGAAA