Sequence
atgc intronic sequence ATGC exonic sequenceAGAAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGACAATGCTCCTAAAAGATCATATGCTGTCAACCAGgttagtgaattttctgatgagtaagccttcttttgttttgggggtaaaaaacttgcttttgtttacaccattcaaaattatatggcttttgttttcag
Basic information
species | Glycine max |
transcript | GLYMA20G11330.1 |
intron # | 23 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 23
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 5'ss of exon 31
AGAAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGACAATGCTCCTAAAAGATCATATGCTGTCAACCAGgttagtga-attttctgatgagtaagccttcttttgttttgggggta--aaaaacttgcttttgtttacaccattcaaaattatatggcttttgttttcag
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AGGAGAGATGTTTATGGAGCTTGGGAACAATACCTTGGCTTGGAACATACTGACACAACACCAAAAAGGTCTTATACAGCCAATCAGgtaatcagtgttggctaataatggtttttgcgtacaattcaaaactggcaagaaataatctgagtgtttaagatttaagagtgta-aatatctgtttattt
upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 23
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 5'ss of exon 27
AGAAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGACAATGCTCCTAAAAGATCATATGCTGTCAACCAGgttagtgaattttctgatgagtaagccttcttttgttttgggggtaaaaaacttgcttttgtttacaccattcaaaattata-tggcttttgttttcag---------
|| |||||||| ||||| || |||||||| |||||||||||||||||| |||| | ||| || ||||| | || | | ||| ||||| | | | | || | | ||| || | | || || | ||| || | | || | |||| || | | | || |
AGGAGAGATGTCTATGGAGCCTGGGAGCAGTATCTTGGTTTGGAGCATGCTGATACTGCACCAAAAAGGGCCTACACAGCCAATCAGgtatgctgctgtctggttgtgaa------cttgtgaagcgagcatagcgaatt--cttgtgcctgttacttttacctttattctgtcactcggcttgggcatatctat
upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 23
lower sequence: GRMZM2G303655_T01 (Zea mays), 5'ss of exon 20
AGAAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGACAATGCTCCTAAAAGATCATATGCTGTCAACCAGgttagtga----attttctgatgag-taagccttcttt-tgttttgggggta-aaaaacttgcttttgtttacaccattcaaaattatatggcttttgttttcag
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CGGAGAGATGTATATGGTGCTTGGGAACAATACCTTGGCTTGGAGCACACTGATACAACATCGAAACGGTCTTACACATCCAATCAGgtatgcaatgctattctgttgtgaaatgagtgaagtagatgtttgatgtgtccatgaacttattcatggtt---ttgtttgtgtccttctagcttt-actctcg-
upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 23
lower sequence: GRMZM2G014805_T02 (Zea mays), 5'ss of exon 12
AGAAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGACAATGCTCCTAAAAGATCATATGCTGTCAACCAGgttagtga----attttctgatg---agtaagccttcttttgttttgggggtaaaaaact-tgcttttgtttacaccattcaaaattatatggcttttgttttcag
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AGGAGAGATGTATATGGTGCTTGGGAACAATACCTTGGCTTGGAGCACACCGATACAACATCGAAAAGGTCTTACACAGCCAATCAGgtaggcaatgctatattctgttgtaaaatgagtgaaataaatgttcgacgttgtaagattgtggaagtgcttgattgtattgcatagatggagcacatat------
upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 23
lower sequence: Vv06s0009g00960.t01 (Vitis vinifera), 5'ss of exon 31
AGAAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGACAATGCTCCTAAAAGATCATATGCTGTCAACCAGgttagtgaattttctgatgagtaagccttcttttgttttgg------gggtaaaaaacttgcttttgtttacaccattcaaaattatatggcttttgttttcag
||||||||||||||||||||||||||||| |||||||| | |||||| |||||| |||||||||||| | ||||| | || ||||| || || || | | ||| | | ||||| | | | ||| | | ||| | || ||| || |
AGAAGAGATGTTTATGGTGCTTGGGAGCAGTATCTTGGACTAGAGCATTCTGACACTGCTCCTAAAAGGGCTTATGCAGCTAATCAGgtatgttg-cttcttggt-attaacttctatcctgtttagatatgctagattgtaaattccatattgatgttgtcacccaa--ccatgcag-------------
upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 23
lower sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 28
AGAAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGACAATGCTCCTAAAAGATCATATGCTGTCAACCAGgttagtgaattttctgatgagtaagccttcttttgttttgggggtaaaaaacttgcttt-tgtttacaccattcaaaattatatggcttttgttttcag
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AAGCGGGATGTCTATGGTGCTTGGGAGCACTACCTGGGTTTGGAGCACTCGGACACAGCACCAAAGCGTTCTCATCTTGCTAGTCAGgtaagatac-------atagcactctcctcttctatatcggatttccacggattacttaacgattgtattattccag----------------------
upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 23
lower sequence: EFJ13603 (Selaginella moellendorffii), 5'ss of exon 27
AGAAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGACAATGCTCCTAAAAGATCATATGCTGTCAACCAGgttagtgaattttctgatgagtaagccttcttttgttttgggggtaaaaaacttgcttt-tgtttacaccattcaaaattatatggcttttgttttcag
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AAGCGGGATGTCTATGGTGCTTGGGAGCACTACCTGGGTTTGGAGCACTCGGACACAGCACCAAAGCGTTCTCATCTTGCTAGTCAGgtaagatac-------atagcactctcctcttctatatcggatttccacggattgcttaacgattgtattgttccag----------------------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|193546964|gb|FK502343.1|FK502343EST: GTTTGGAGCATACTGACAATGCTCCCAAAAGATCATATGCTGTCAACCAG AATCGCCACACATTTGAGAAGCCAGTAAAGATTTATAATTAG
genomic: GTTTGGAGCATACTGACAATGCTCCTAAAAGATCATATGCTGTCAACCAGgttagtgaat ... ttgttttcagAATCGCCACACATTTGAGAAGCCAGTAAAGATTTATAATTAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAAGAGATGTTTATGGTGCTTGGGAGCAATATCTTGGTTTGGAGCATACTGACAATGCTCCTAAAAGATCATATGCTGTCAACCAGgttagtgaattttctgatgagtaagccttcttttgttttgggggtaaaaaacttgcttttgtttacaccattcaaaattatatggcttttgttttcag
- - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG