Sequence
atgc intronic sequence ATGC exonic sequenceCGTGAGTTCTATCTTGAAGGAGGGGCCATGGTCTTGGCTGACGGAGGTGTTGTCTGCATTGATGAGTTTGATAAGATGAGGCCAGAAGATAGgtacttagtgtctgatgtttttttatttctaggtcatcattgttgatttatgacgaaattttatatggtctccatgatgtag
Basic information
species | Glycine max |
transcript | GLYMA13G22420.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G22420.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os02g55410.2 (Oryza sativa), 5'ss of exon 11
CGTGAGTTCTATCTTGAAGGAGGGGCCATGGTCTTGGCTGACGGAGGTGTTGTCTGCATTGATGAGTTTGATAAGATGAGGCCAGAAGATAGgtacttagtgtctgatgtttttttatttctaggtcatcattgttgatttatgacgaaattttatatggtctccatgatgtag----------------------------------
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CGAGAGTTTTATTTGGAAGGAGGGGCCATGGTTTTGGCTGATGGTGGAGTTGTTTGTATTGATGAGTTTGACAAAATGAGGCCTGAGGACCGgtaagcattgatctatagtcttctttctagaaactaaaataagcattgcacatgtaatttttccttactcttcaaagttgaaaccatattgagttacctttatgctgtgattccag
upper sequence: GLYMA13G22420.1 (Glycine max), 5'ss of exon 10
lower sequence: AT2G07690.2 (Arabidopsis thaliana), 5'ss of exon 10
CGTGAGTTCTATCTTGAAGGAGGGGCCATGGTCTTGGCTGACGGAGGTGTTGTCTGCATTGATGAGTTTGATAAGATGAGGCCAGAAGATAGgtacttagtgtctgat-----gtttttttatttctaggtcatcattgttgattta--tgacgaaat-tttatatggtctccatgatgtag
|| ||||||||||||||||| || || ||||| |||||||| ||||||||||| || |||||||| ||||| |||||||| || ||||||||||| || ||||| || || |||| | || | | | | ||| | ||| ||| | | ||| ||
CGAGAGTTCTATCTTGAAGGTGGTGCTATGGTTTTGGCTGATGGAGGTGTTGTGTGTATTGATGAATTTGACAAGATGAGACCGGAAGATAGgtaattcaaatctgaatcatagtgttgacgaatctaatttttctctatgagtagaattgatggaatgttttttttttctttatag-----
upper sequence: GLYMA13G22420.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv11s0149g00130.t01 (Vitis vinifera), 5'ss of exon 10
CGTGAGTTCTATCTTGAAGGAGGGGCCATGGTCTTGGCTGACGGAGGTGTTGTCTGCATTGATGAGTTTGATAAGATGAGGCCAGAAGATAGgtactt-----------agtgtctgatgtttttttatttctaggtcatcattgttgatttatgacgaaattttatatggtctccatgatgtag-----
||||| || ||||| |||||||| || ||||| ||||| || |||||||||||||| |||||||||||||| || |||||| |||| || ||||| || | ||||| | ||| || | ||||| | | ||||||| || | ||| | | || | | |||| |
CGTGAATTTTATCTAGAAGGAGGAGCAATGGTTTTGGCAGATGGAGGTGTTGTCTGTATTGATGAGTTTGACAAAATGAGGGCAGAGGACAGgtaatttaaactattatggatcctgataacactctatcccttgtacatcagtcat-atttatgtcg--ttcttacaagttcatctttatgtggtttag
upper sequence: GLYMA13G22420.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S355_49V6.1 (Physcomitrella patens), 5'ss of exon 11
CGTGAGTTCTATCTTGAAGGAGGGGCCATGGTCTTGGCTGACGGAGGTGTTGTCTGCATTGATGAGTTTGATAAGATGAGGCCAGAAGATAGgta----cttagtgtctgatgtttttttatttctaggtcatcattgttgatttat----gacgaaattttatatggtctccatgatgtag----------------------------------------------------------
| ||||| || ||||||||||| || ||||| | ||||| |||||||||||||||||||||||||| || || ||| | || ||||| |||| | | | ||| |||| | | | | || ||| || || ||| | ||| | || |
AGAGAGTTTTACCTTGAAGGAGGTGCTATGGTTCTTGCTGATGGAGGTGTTGTCTGCATTGATGAGTTCGACAAAATGCGACCTGAAGACAGgtgggtgcctctttcctggccttttcgtttgaaaaagcaataggatccactttgccaaaaaccaagatttttgtggatccgtcaatctgtacatgatagatatatggcacaaattgtcgtcatttattttgtagacaatattgtgcag
upper sequence: GLYMA13G22420.1 (Glycine max), 5'ss of exon 10
lower sequence: PP1S503_12V6.1 (Physcomitrella patens), 5'ss of exon 1
--CGTGAGTTCTATCTTGAAGGAGGGGCCATGGTCTTGGCTGACGGAGGTGTTGTCTGCATTGATGAGTTTGATAAGATGAGGCCAGAAGATAGgtacttagt---------gtctgatgtttttttatttctaggtcatcattgttgatttatgacgaaa-ttttatatggtctccatgatgtag--------------------------------------------------------
|||| | || | ||||| | ||||| ||||||||||||||||||||||||||| | | ||| || ||||| || | | | | || | |||| | || | ||| || || ||| || |||| | | | ||| ||||
CATGTGAAGCGGGCACTAGCGGTGCAAAAATGGTTCTTGCTGATGGAGGTGTTGTCTGCATTGATGAGTTTTACACAATGCAACCTGAAGACAGATGCGTgcctctttccaggcctattcgttttaaaaatcaataggatctactttacttccggaccaagcttttgtgtatccgtcattctgtacatgatagatatatggcacaaattgttgtcatttattctgtagatcatattctgcag
upper sequence: GLYMA13G22420.1 (Glycine max), 5'ss of exon 10
lower sequence: EFJ31205 (Selaginella moellendorffii), 5'ss of exon 11
CGTGAGTTCTATCTTGAAGGAGGGGCCATGGTCTTGGCTGACGGAGGTGTTGTCTGCATTGATGAGTTTGATAAGATGAGGCCAGAAGATAGgtacttagtgtctgatgtttttttatttctaggtcatcattgttgatttatgacgaaattttatatggtctccatgatgtag
|| ||||||||| | || ||||| || ||||| | || || ||||| || || |||||||| || ||||| ||||||||||||||||| ||||| | |||||| | ||||| | | | || || || | | | |
CGAGAGTTCTATTTAGAGGGAGGAGCGATGGTGCTTGCCGATGGAGGGGTGGTTTGCATTGACGAATTTGACAAGATGAGGCCAGAAGACAGgtaaatgaaatctgatctcgatttatcttttattgat-ataatttgtatgtatag---------------------------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|207814654|gb|GD788563.1|GD788563EST: GGAGGTGTTGTCTGCATTGATGAGTTTGATAAGATGAGGCCAGAAGATAG AGTTGCTATTCACGAGGCCATGGAACAACAAACTATATCTATAGCCAAAGC
genomic: GGAGGTGTTGTCTGCATTGATGAGTTTGATAAGATGAGGCCAGAAGATAGgtacttagtg ... catgatgtagAGTTGCTATTCACGAGGCCATGGAACAACAAACTATATCTATAGCCAAAGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGTGAGTTCTATCTTGAAGGAGGGGCCATGGTCTTGGCTGACGGAGGTGTTGTCTGCATTGATGAGTTTGATAAGATGAGGCCAGAAGATAGgtacttagtgtctgatgtttttttatttctaggtcatcattgttgatttatgacgaaattttatatggtctccatgatgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG