Sequence
atgc intronic sequence ATGC exonic sequenceTCCAAGAGTAACTCCTGAAGTGACCAGAGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTGTACTACTCCCAGATAGAGGATCTTATGTTTGAGgtaattgatgactctagaaatcttttaaaatgatctttgttgttggttaattacaatggcactgatttcccatgttgtttctgtag
Basic information
species | Glycine max |
transcript | GLYMA20G09810.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G09810.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 5'ss of exon 7
TCCAAGAGTAACTCCTGAAGTGACCAGAGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTGTACTACTCCCAGATAGAGGATCTTATGTTTGAGgtaattgatgactctagaaatcttttaaaatgatctttgttgt-tggttaattacaatggcactgatttcccatgttgtttctgtag
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TCCAAGAGTCACACCAGAGGTTACAAGGGACGTATGCCTGTTAGCTAGAATGATGGCTGCTAACTTATACTATGCACAGATAGAGGATCTGATGTTTGAGgtaaa-aataataggttgtactatttaaag-gatatatgctgtattgatgtttgatctcacacaaaattttgac----cacctgcag
upper sequence: GLYMA20G09810.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 5'ss of exon 5
TCCAAGAGTAACTCCTGAAGTGACCAGAGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTGTACTACTCCCAGATAGAGGATCTTATGTTTGAGgtaattgatgactctagaaatcttttaaaatgatctttgttgttggttaattacaatggcactgatttcccatgttgtttctgtag
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TCCAAGAGTGACACCAGAAGTCACAAGGGATGTATGCTTGCTTGCTAGAATGATGGCTTCAAATTTATACTGCTCGCAAATTGAGGATCTCATGTTTGAGgtaag-aattacttca----tccctta------tcttccacacatataaat--caattttattaaattctccaa--attctggcag
upper sequence: GLYMA20G09810.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os09g14670.1 (Oryza sativa), 5'ss of exon 5
TCCAAGAGTAACTCCTGAAGTGACCAGAGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTGTACTACTCCCAGATAGAGGATCTTATGTTTGAGgtaattgatgactctagaaatcttttaaaatgatctttgttgttggt-taattac--aatggcactgatttcccatgttgtttctgtag
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TCCAAGAGTCACACCAGAGGTTACAAGGGATGTCTGCTTGCTTGCAAGAATGATGGCAGCAAACTTGTATTGCTCACAAATTGAGGATCTCATGTTTGAGgtacaatttgatt-tgactattttaaagtacagtaattattatgcatatgattgttggatattgataaagctttaaatgatttcag---
upper sequence: GLYMA20G09810.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 5
TCCAAGAGTAACTCCTGAAGTGACCAGAGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTGTACTACTCCCAGATAGAGGATCTTATGTTTGAGgtaat--tgatgactctagaaatcttttaaaatgatctttgttgttggttaattacaatggcactgatt-tcccatgttgtttctgtag
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TCCAAGAGTCACGCCAGAGGTTACAAGGGATGTATGCTTGTTGGCTAGAATGATGGCTGCTAATTTGTATAATGCCCAGATAGAAGACCTGATGTTTGAGgtaaaagtaaggacac----atttttttaatattgtagt-gatattagtc--tcacaagaattctttttatcgcatgcag---------
upper sequence: GLYMA20G09810.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G473001_T02 (Zea mays), 5'ss of exon 4
TCCAAGAGTAACTCCTGAAGTGACCAGAGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTGTACTACTCCCAGATAGAGGATCTTATGTTTGAGgtaattgatgactctagaaatcttttaaaatgatctttgttgttggttaattacaatggcactgatttcccatgttg---tttctgtag
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TCCAAGAGTGACACCAGAGGTTACCAGGGATGTCTGCTTGCTTGCCAGAATGATGGCATCAAACTTGTACTGCTCTCAGATTGAGGATCTCATGTTTGAGgtgtct-attactttaataatcag--aatatagttcataacatcatttatat-cagaggattggagttgatagattgaaatgcttgcag
upper sequence: GLYMA20G09810.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv19s0014g01390.t01 (Vitis vinifera), 5'ss of exon 5
TCCAAGAGTAACTCCTGAAGTGACCAGAGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTGTACTACTCCCAGATAGAGGATCTTATGTTTGAGgtaattgatgactctagaaatcttttaaaatgat-ctttgttgttggttaattac--aatggcactgatttcccatgttgtttct-gtag-----------------------------------------------------------------
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CCCAAGGGTGACTCCTGAGGTCACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTATACTATTCCCAGATAGAGGATCTTATGTTTGAGgtatatattagctatactttattcttaattagattcttcatttttctcctttcatggagcatcacttacttagcaggaggttgcttgctacattcattatcatacttgttgcagtcactattatgctaattttgctttgttattttcattggcagMapped 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|151396752|gb|EV266625.1|EV266625EST: TGATGGCTGCTAACTTGTACTACTCCCAGATAGAGGATCTTATGTTTGAG CTGTCAATGTGGCGCTGCAATGACGAGCTACGTGTCCGTGCAGATGAACTT
genomic: TGATGGCTGCTAACTTGTACTACTCCCAGATAGAGGATCTTATGTTTGAGgtaattgatg ... gtttctgtagCTGTCAATGTGGCGCTGCAATGACGAGCTACGTGTCCGTGCAGATGAACTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCAAGAGTAACTCCTGAAGTGACCAGAGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTGTACTACTCCCAGATAGAGGATCTTATGTTTGAGgtaattgatgactctagaaatcttttaaaatgatctttgttgttggttaattacaatggcactgatttcccatgttgtttctgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT