Sequence
atgc intronic sequence ATGC exonic sequenceTCCTGGAGTTAGATGGGATGATGTTGCAGGGCTTACTGAAGCAAAAAGGCTTCTAGAAGAAGCTGTCGTTCTTCCTTTGTGGATGCCTGAATATTTCCAGgtaatcttgaactaatttttctctgaattctcttaaaactagcttacctaatgtttgcaatccagttatatttaataatcatggtatattttataactaa...
Basic information
species | Glycine max |
transcript | GLYMA07G03820.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G03820.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g49000.1 (Oryza sativa), 5'ss of exon 3
TCCTGGAGTTAGATGGGATGATGTTGCAGGGCTTACTGAAGCAAAAAGGCTTCTAGAAGAAGCTGTCGTTCTTCCTTTGTGGATGCCTGAATATTTCCAGgtaat--cttgaacta-atttttctctgaattctcttaaaactagcttacctaatgtttgcaatccagttatatttaataatcatggtatattttataactaa
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CCCAGGTGTTAGATGGGATGATGTCGCAGGTCTTAGTGAGGCCAAAAGACTTCTTGAAGAAGCAGTTGTACTTCCTCTCTGGATGCCTGAATATTTCCAGgtaatgatttttactgtgctattctatcagattctgtaaccttgcctgaatttatttttg-atgctagcca-atgttatggccatg-cacatgatctggcatg
upper sequence: GLYMA07G03820.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G017305_T01 (Zea mays), 5'ss of exon 3
TCCTGGAGTTAGATGGGATGATGTTGCAGGGCTTACTGAAGCAAAAAGGCTTCTAGAAGAAGCTGTCGTTCTTCCTTTGTGGATGCCTGAATATTTCCAGgtaatcttgaactaatttttctctgaattctctta--aaactagcttacctaatgtttgcaatcc-agttatatttaataatcatggtatattttataactaa
||| ||||| ||||||||||||||||| || |||| ||| || ||| | || || || ||||| || || |||||| | ||||||||||||||||| |||||||| | | ||| |||| | || |||| | || | ||| ||| | || | || | | | | | | | |
TCCAGGAGTAAGATGGGATGATGTTGCCGGACTTAGTGAGGCCAAACGACTCCTCGAGGAAGCAGTTGTGCTTCCTCTCTGGATGCCTGAATATTTTCAGgtaatagtctat--attcttctacgctgtcccttattggttcaaactaagcactgtaaagtatctgaaaaatgtctatttgttcttggcactaacacatttt-
upper sequence: GLYMA07G03820.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G054715_T01 (Zea mays), 5'ss of exon 3
TCCTGGAGTTAGATGGGATGATGTTGCAGGGCTTACTGAAGCAAAAAGGCTTCTAGAAGAAGCTGTCGTTCTTCCTTTGTGGATGCCTGAATATTTCCAGgta-------atcttgaactaatttttctctgaattctcttaaaactagc-ttacctaatgtttgcaatccagttatat-ttaataatcatggtatattttataactaa
||| ||||| ||||||||||||||||| || |||| ||| || ||| | || || || ||||| || || |||||| | ||||||||||||||||| |||||| || || ||| | || || | | | | ||| |||| | | | | || || |||| | || | | | |||||
TCCAGGAGTAAGATGGGATGATGTTGCCGGACTTAGTGAGGCCAAACGACTCCTCGAGGAAGCAGTTGTGCTTCCTCTCTGGATGCCTGAATATTTTCAGgtactagtctatattctgctatgctgtcccttactggt-tcaaacttagcgctgtaaagtatctgaaagatgtttatttattgttggcactaacaaatttt--------
upper sequence: GLYMA07G03820.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 3
TCCTGGAGTTAGATGGGATGATGTTGCAGGGCTTACTGAAGCAAAAAGGCTTCTAGAAGAAGCTGTCGTTCTTCCTTTGTGGATGCCTGAATATTTCCAGgtaatcttgaactaattttt---ctctgaattct---cttaaaactagc-ttacctaatgttt-gcaatc-----------cagttatatttaataatcatggtatattttataactaa--------------------------------------------------
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TCCTGGTGTCCGTTGGGATGATGTTGCAGGTTTGTCTGAAGCCAAAAGGCTGCTTGAGGAGGCAGTTGTCCTTCCTTTATGGATGCCCGAATACTTTCAGgtactttgattctgctccatacgctgtgaaatttggattctatattactattattagacatggagcaatcatacagaataacagtttcaattcatcatttccgtagactttatatttgatcttccaggtatagaggatacttaatttgattgtttttgtttcccttcag
upper sequence: GLYMA07G03820.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0002g05260.t01 (Vitis vinifera), 5'ss of exon 3
TCCTGGAGTTAGATGGGATGATGTTGCAGGGCTTACTGAAGCAAAAAGGCTTCTAGAAGAAGCTGTCGTTCTTCCTTTGTGGATGCCTGAATATTTCCAGgtaatcttgaactaatttttctctgaattctc-ttaaaactagcttacctaatgtttgcaatccagttatatttaataatcatggtatattttataactaa---
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CCCTGGAGTGAGATGGGATGATGTTGCAGGATTGAGTGAAGCCAAAAGACTCCTAGAGGAAGCTGTTGTCCTTCCTTTATGGATGCCTGAATATTTCCAGgtatgtctg--cctatttttccctgaattatcatcaggaaaaagttg--gaattcatcttttggtgttagagacaaggatatcgggatatcttctgttgggaag
upper sequence: GLYMA07G03820.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S99_113V6.1 (Physcomitrella patens), 5'ss of exon 3
TCCTGGAGTTAGATGGGATGATGTTGCAGGGCTTACTGAAGCAAAAAGGCTTCTAGAAGAAGCTGTCGTTCTTCCTTTGTGGATGCCTGAATATTTCCAGgt----aatcttga-actaatttttctctgaattctc-ttaaaactagcttacctaatgtttgcaatccagttatatttaataatcatggtatattttataactaa
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TCCTGGTGTCCGATGGGAGCACATTGCGGGTCTCACTGAAGCAAAGCGTTTGCTAGAGGAAGCTGTGGTTTTGCCTCTTTGGATGCCTGAATATTTCCAGgtgtcgaatcacaccgccaatcatgcattgttttgttgttaagacca---cgcatggtctatttgttctaatgattgctcactgctatt-tggatgaagcgact--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|151402734|gb|EV272547.1|EV272547EST: TTCTAGAAGAAGCTGTCGTTCTTCCTTTGTGGATGCCTGAATATTTCCAG GGAATCAGGAGACCGTGGAAAGGTGTTCTCATGTTTGGACCTCCAGGAACT
genomic: TTCTAGAAGAAGCTGTCGTTCTTCCTTTGTGGATGCCTGAATATTTCCAGgtaatcttga ... gttcttgcagGGAATCAGGAGACCGTGGAAAGGTGTTCTCATGTTTGGACCTCCAGGAACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCTGGAGTTAGATGGGATGATGTTGCAGGGCTTACTGAAGCAAAAAGGCTTCTAGAAGAAGCTGTCGTTCTTCCTTTGTGGATGCCTGAATATTTCCAGgtaatcttgaactaatttttctctgaattctcttaaaactagcttacctaatgtttgcaatccagttatatttaataatcatggtatattttataactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG