Sequence
atgc intronic sequence ATGC exonic sequenceAGAGAAGGAGTTTGAAATGGCTTTGCAAGATCGTGTGATGGAAGAAACAAAAGACAAGAAAAACGCAGTTGAGGCTTATGTTTATGACATGAGAAACAAGgtgggcgctatctttcttgttctcttacccagggtctaacatcacatacaaatgcctgtcatataataattgttgattttttttcctgttatcatttcag
Basic information
species | Glycine max |
transcript | GLYMA07G00820.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G00820.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g08560.2 (Oryza sativa), 5'ss of exon 6
AGAGAAGGAGTTTGAAATGGCTTTGCAAGATCGTGTGATGGAAGAAACAAAAGACAAGAAAAACGCAGTTGAGGCTTATGTTTATGACATGAGAAACAAGgtgggcgctatctttcttgttctcttacccagggtctaacatcacatacaaatgcctgtcatataataattgttgattttttttcctgttatcatttcag
|| || |||| |||||||||| | || || | ||||||||||| |||||||| ||||| || || || ||| ||||||||||||||||| |||||||||| | | || || ||| || || | || | | | || | | | |||| || || |
GGAAAAAGAGTATGAAATGGCTCTTCAGGACAGGGTGATGGAAGAGACAAAAGATAAGAAGAATGCCGTGGAGTCTTATGTTTATGACATGCGAAACAAGgtttgatcgattccactctttc-ctgacttcatctttag--ttagaggcagaaactgataatatgttatttttcag------------------------
upper sequence: GLYMA07G00820.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os05g08840.1 (Oryza sativa), 5'ss of exon 5
AGAGAAGGAGTTTGAAATGGCTTTGCAAGATCGTGTGATGGAAGAAACAAAAGACAAGAAAAACGCAGTTGAGGCTTATGTTTATGACATGAGAAACAAGgtgggc---gctatctttcttgttctcttacccagggtctaacatcacat-acaaatgcctgtcatataataattgttgattttttttcctgttatcatttcag
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TGAGAATGAGTATGAAATGGCTCTTCAGGACAGAGTAATGGAAGAAACCAAGGAGAAAAAGAATGCTGTCGAGGCTTATGTTTATGACATGCGTAACAAGgtatgccgagtttaattttgtgatgatatatgaacatttgaacagtacctgatgagtttcttgcgttcag----------------------------------
upper sequence: GLYMA07G00820.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G023232_T01 (Zea mays), 5'ss of exon 6
AGAGAAGGAGTTTGAAATGGCTTTGCAAGATCGTGTGATGGAAGAAACAAAAGACAAGAAAAACGCAGTTGAGGCTTATGTTTATGACATGAGAAACAAGgtgggcgctatctttcttgttctcttacccagggtctaacatcacatacaaatgcctgtcatataataattgttgatttt-ttttcctgttatcatttcag
|||||| |||| ||| |||||| | ||||| | || |||||||||||||| || ||||| || || ||||| |||||||| ||||||||| | |||||||| ||| | ||| | ||||| |||| |||| ||| | | |||| | |||| | | || || ||
AGAGAAAGAGTATGAGATGGCTCTTCAAGACAGAGTAATGGAAGAAACAAAGGAGAAGAAGAATGCTGTTGAAGCTTATGTGTATGACATGCGTAACAAGgta-----tatt-------------------gagtca-----cgcatactaatgt-tgtcttatga-agttgtgagcctgattttgttctcttctatttag
upper sequence: GLYMA07G00820.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G063676_T01 (Zea mays), 5'ss of exon 6
AGAGAAGGAGTTTGAAATGGCTTTGCAAGATCGTGTGATGGAAGAAACAAAAGACAAGAAAAACGCAGTTGAGGCTTATGTTTATGACATGAGAAACAAGgtg---ggcgctatctttcttgttctcttacccagggtctaacatcacatacaaatgcctgtcatataataattgttgattttttttcctgttatcatttcag
|||||| |||| ||| |||||| | || || | || ||||||||||| ||||| |||||||| || || || |||||||| ||||||||| | |||||||| || | | | |||| | || || | | | | || || ||| | ||| || ||
AGAGAAAGAGTATGAGATGGCTCTTCAGGACAGAGTAATGGAAGAAACCAAAGAGAAGAAAAATGCTGTGGAAGCTTATGTCTATGACATGCGTAACAAGgtatgtggagatgcatgccttgatggttttccttgtgatataaacagtatctaatgtccttttttattgtatttag---------------------------
upper sequence: GLYMA07G00820.1 (Glycine max), 5'ss of exon 5
lower sequence: AT1G79930.1 (Arabidopsis thaliana), 5'ss of exon 6
AGAGAAGGAGTTTGAAATGGCTTTGCAAGATCGTGTGATGGAAGAAACAAAAGACAAGAAAAACGCAGTTGAGGCTTATGTTTATGACATGAGAAACAAGgtgggcgctatctttcttgttctcttacccagggtctaacatcacatacaaatgcctgtcatataataattgttgattttttttcctgttatcatttcag
|||||||| ||||| |||||||||||||| | || |||||||| || || ||| ||| || || |||||| ||||||||||||| ||| | ||||| ||| | | | | | | || | | | || | || || ||| ||| | || | | | | | | || | | |
GGAGAAGGAATTTGAGATGGCTTTGCAAGACAGAGTTATGGAAGAGACCAAGGACCGGAAGAATGCTGTTGAGTCTTATGTTTATGATATGCGGAACAAAgtgag-aatctttatttcgtcttttcattggcagtatg----catatgtaaag--ttgtga-gtattgggtactaacgtgtcttgttttcag--------
upper sequence: GLYMA07G00820.1 (Glycine max), 5'ss of exon 5
lower sequence: AT1G79920.2 (Arabidopsis thaliana), 5'ss of exon 6
AGAGAAGGAGTTTGAAATGGCTTTGCAAGATCGTGTGATGGAAGAAACAAAAGACAAGAAAAACGCAGTTGAGGCTTATGTTTATGACATGAGAAACAAGgtgggcgctatctttcttgttctcttacccagggtctaacatcacatacaaatgcctgtcatataataattgttgattttttttcctgttatcatttcag
|||||||| ||||| |||||| ||||||| | || |||||||| || || ||| ||| || || |||||| ||||||||||||| ||| ||||||| ||| | | | | | | || | | | || | || || ||| | | || | | | ||| | | || | | |
GGAGAAGGAATTTGAGATGGCTCTGCAAGACAGAGTTATGGAAGAGACCAAGGACCGGAAGAATGCTGTTGAGTCTTATGTTTATGATATGCGAAACAAAgtgagaaatctttatttcgtcttttcattggcagtatg----catatgtaaag---ttttgagtattgagtactgacgtgtcttgttttcag--------
upper sequence: GLYMA07G00820.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv09s0002g04680.t01 (Vitis vinifera), 5'ss of exon 5
AGAGAAGGAGTTTGAAATGGCTTTGCAAGATCGTGTGATGGAAGAAACAAAAGACAAGAAAAACGCAGTTGAGGCTTATGTTTATGACATGAGAAACAAGgtgggcgctatctttcttgttctcttacccagggtctaacatcacatacaaatgcctgtcatataataattgttgattttt-tttcctgttatcatttcag
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AGAAAAGGAGTTTGAAATGGCTTTGCAAGATCGAGTCATGGAAGAAACAAAAGACAAGAAGAATGCCGTGGAGGCATATGTTTATGACATGAGAAACAAGgtaagtgtt-tctatcctattggctaagacagaatt--acagcatttgtaaccttcacctac-tgatatctacacatgattatcttctgccccag------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|24205508|gb|BU964761.1|BU964761EST: AAGACAAGAAAAACGCAGTTGAGGCTTATGTTTATGACATGAGAAACAAG CTTAATGACAAATACCAAGAGTTTGTCACTGCTTCAGAGAGAGATGATTTT
genomic: AAGACAAGAAAAACGCAGTTGAGGCTTATGTTTATGACATGAGAAACAAGgtgggcgcta ... atcatttcagCTTAATGACAAATACCAAGAGTTTGTCACTGCTTCAGAGAGAGATGATTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAGAAGGAGTTTGAAATGGCTTTGCAAGATCGTGTGATGGAAGAAACAAAAGACAAGAAAAACGCAGTTGAGGCTTATGTTTATGACATGAGAAACAAGgtgggcgctatctttcttgttctcttacccagggtctaacatcacatacaaatgcctgtcatataataattgttgattttttttcctgttatcatttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA