Sequence
atgc intronic sequence ATGC exonic sequenceTCGGGAATTCACTCATCGAGTAAAATCAGTTTCAATGGCTAAGTTTACTTCACAAGAAGTTAGTGCACTTCAAGAAGGAGGCAATCAGgtatagatgccggtttatgctaaaactcatgctagatatctttccagttggcctgatatcatatatttcttaagttgatttctgctttttctaatacttgaag
Basic information
species | Glycine max |
transcript | GLYMA07G09750.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G09750.2 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os05g45840.1 (Oryza sativa), 5'ss of exon 3
TCGGGAATTCACTCATCGAGTAAAATCAGTTTCAATGGCTAAGTTTACTTCACAAGAAGTTAGTGCACTTCAAGAAGGAGGCAATCAGgtatagatgccggtttatgctaaaactcatgctagatatctttccagttggcctgatatcatatatttcttaagttgatttctgctttttctaatacttgaag
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TCGGGAGTTCACTCATCGTGTAAAATCAATATCAATGGCTAAATTTACTTCTCAAGAAGTTTCTGCTCTTCAAGAAGGGGGAAACGAGgt-------tggcttaataccattatttataatttaaatcct---gatatgcttggtgtc---tgcttttaagtcttacaacatatatttttgatagttcag-
upper sequence: GLYMA07G09750.2 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os02g11820.1 (Oryza sativa), 5'ss of exon 4
TCGGGAATTCACTCATCGAGTAAAATCAGTTTCAATGGCTAAGTTTACTTCACAAGAAGTTAGTGCACTTCAAGAAGGAGGCAATCAGgtatagatgccggtttatgctaaaactcatgctagatatc-tttccagttggcctgatatcatatatttcttaagttgatttctgctttttctaatacttgaag
|| || ||||| ||||||| || |||||||| |||||||| |||||| |||| ||||||||||| |||||||||||||| ||| |||| | || | | | | | ||||| | || | ||| | || || | | || | | || | | |
CCGAGAGTTCACGCATCGAGCGAAGTCAGTTTCTATGGCTAAATTTACTGCACAGGAAGTTAGTGCCCTTCAAGAAGGAGGAAATGAGgtg-acttgtcc-tctcttttctttttcatgttttctaccattttaggcctttctaatttgacatgtgttttgcataacctgtag-------------------
upper sequence: GLYMA07G09750.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G341732_T02 (Zea mays), 5'ss of exon 5
TCGGGAATTCACTCATCGAGTAAAATCAGTTTCAATGGCTAAGTTTACTTCACAAGAAGTTAGTGCACTTCAAGAAGGAGGCAATCAGgta-tagatgccggtttatgctaaaactcatgctagatatctt-tccagttggcctgatatcatatatttcttaagttgatttctgctttttctaatacttgaag
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TCGGGAGTTCACGCATCGAGTAAAATCGGTTTCCATGGCCAAATTTACTGCACAAGAAGTTACTGCCCTTCAAGAAGGGGGGAATGAGgtaacatgtatctgtttttttttctacttttcccatcaatcccatgtcttctattcaacacggcattgattttgaaggagaatagaattggtgtaat---tga--
upper sequence: GLYMA07G09750.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G136547_T01 (Zea mays), 5'ss of exon 2
TCGGGAATTCACTCATCGAGTAAAATCAGTTTCAATGGCTAAGTTTACTTCACAAGAAGTTAGTGCACTTCAAGAAGGAGGCAATCAGgtatagatgccggtttat-----gctaaaactcatgctagatatctttccagttggcctgatatcatatatttcttaagttgatttctgctttttctaatacttgaag
|| || |||| |||||| ||||||||||| ||||||||||| || ||||| ||||||||| ||||||| |||||| |||||| |||| | ||||| | | | | | |||||| ||||| ||| |||| | | | | |
CCGAGAGTTCAGTCATCGTGTAAAATCAGTATCAATGGCTAAATTCACTTCCCAAGAAGTTTCGGCACTTCTAGAAGGGGGCAATGAGgttcgcctaatattttattaataatttagaaaggtctgtgtgatctttacagtta-cctaatattctgtttcttccag------------------------------
upper sequence: GLYMA07G09750.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G126079_T01 (Zea mays), 5'ss of exon 3
TCGGGAATTCACTCATCGAGTAAAATCAGTTTCAATGGCTAAGTTTACTTCACAAGAAGTTAGTGCACTTCAAGAAGGAGGCAATCAGgtatagatgccggtttatgctaaaactcatgctagat------atctttccagttggcctgatatcatatatttcttaagttgatttctgctttttctaatacttgaag
|| || |||| |||||| ||||||||||| || |||||||| || ||||| ||||||||| |||||||| ||||| |||||| |||| | ||||| | || | | | || |||||| ||||| ||| |||| | | | | |
CCGAGAGTTCAGTCATCGTGTAAAATCAGTATCGATGGCTAAATTCACTTCCCAAGAAGTTTCGGCACTTCAGGAAGGGGGCAATGAGgttcgcctaatattttat-taataatttaggaaagtctgtgtgatctttacagtta-cctaatattctctttcttccag------------------------------
upper sequence: GLYMA07G09750.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G043056_T01 (Zea mays), 5'ss of exon 4
TCGGGAATTCACTCATCGAGTAAAATCAGTTTCAATGGCTAAGTTTACTTCACAAGAAGTTAGTGCACTTCAAGAAGGAGGCAATCAGgtatagatgccggtttatgctaaaactcatgctagatatctttccagttggcctgatatcatatatttcttaagttgatttctgctttttctaatacttgaag
|||||| || || |||||||||||||| ||||| ||||| || ||||| ||||||||||| ||| ||||||||||| || ||| ||||| || | | | || | | | || || | || |||| |||| || ||| | ||| ||| | || ||
TCGGGAGTTTACACATCGAGTAAAATCTGTTTCCATGGCCAAATTTACCGCACAAGAAGTTGCTGCCCTTCAAGAAGGGGGGAATGAGgta---------acttgtcttgtatctgtttttcaac--tttccccatcaattccatgtcatctattc---aacatgacattgattttacttaa--cctgtagMapped 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|209722104|gb|BW659319.1|BW659319EST: CTAAGTTTACTTCACAAGAAGTTAGTGCACTTCAAGAAGGAGGCAATCAG CGTGCAAAAGAAATTTATTTTAAAGAATGGGATGCCCAACGTCATTCTTTC
genomic: CTAAGTTTACTTCACAAGAAGTTAGTGCACTTCAAGAAGGAGGCAATCAGgtatagatgc ... atacttgaagCGTGCAAAAGAAATTTATTTTAAAGAATGGGATGCCCAACGTCATTCTTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCGGGAATTCACTCATCGAGTAAAATCAGTTTCAATGGCTAAGTTTACTTCACAAGAAGTTAGTGCACTTCAAGAAGGAGGCAATCAGgtatagatgccggtttatgctaaaactcatgctagatatctttccagttggcctgatatcatatatttcttaagttgatttctgctttttctaatacttgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG