Sequence
atgc intronic sequence ATGC exonic sequenceTCATGAAGAAATTCATCCAACAGTAATGCTTAGTGTAGTTGCTAATCTCACACCATGGTCAGATCATAATCAGAGTCCACGAAATATGTACCAGTGTCAGgttctataatcttttgtactggtcttggtatccaaatctacgttagcagtatagctacatttttttcactctgggggtgtttatgatgtag
Basic information
species | Glycine max |
transcript | GLYMA17G23500.1 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G23500.1 (Glycine max), 5'ss of exon 13
lower sequence: LOC_Os10g35290.1 (Oryza sativa), 5'ss of exon 17
TCATGAAGAAATTCATCCAACAGTAATGCTTAGTGTAGTTGCTAATCTCACACCATGGTCAGATCATAATCAGAGTCCACGAAATATGTACCAGTGTCAGgttctataatcttttgtactggtcttggtatccaaatctacgttagcagt----atagctacatttttttcactctgggggtgtttatgatgtag----------------------------
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TCATGAAGAAATCCACCCTACAGCCATTCTTAGTGTAGTTGCAAATTTGACACCTTGGTCTGATCACAATCAAAGTCCTCGGAACATGTACCAATGTCAGgt-cagtagccagatcttcccttactgtaaatcaatttctcatgcataatgaaaattgctcacgcataatgaatgctgagaccttttttttctagacctgctaacctgcttgcttgttcacag
upper sequence: GLYMA17G23500.1 (Glycine max), 5'ss of exon 13
lower sequence: AT1G29940.1 (Arabidopsis thaliana), 5'ss of exon 19
TCATGAAGAAATTCATCCAACAGTAATGCTTAGTGTAGTTGCTAATCTCACACCATGGTCAGATCATAATCAGAGTCCACGAAATATGTACCAGTGTCAGgttctat--aatcttttgtactggtcttggtatccaaatctacgttagcagtatagctacatttttttcactctgggggtgtttatgatgtag
||| || |||||||||||||| | ||| | ||||| ||||||||||| ||||| |||||||||||||| || ||||| || || ||||| ||||||||||| || | || | | | || | || | | | | | | |||| | | |
TCACGAGGAAATTCATCCAACCGGGATGATAAGTGTGGTTGCTAATCTTACACCTTGGTCAGATCATAACCAAAGTCCCCGTAACATGTATCAGTGTCAGgtattactagaaattcgatgcaaatttt-----ttatgattatgctgctggaagttttttaaattttcagttatacag---------------
upper sequence: GLYMA17G23500.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv13s0084g00600.t01 (Vitis vinifera), 5'ss of exon 18
TCATGAAGAAATTCATCCAACAGTAATGCTTAGTGTAGTTGCTAATCTCACACCATGGTCAGATCATAATCAGAGTCCACGAAATATGTACCAGTGTCAGgttctataat-cttttgtactggtcttggtatccaaat---ctacgttagcagtatagctacatttttttcactctgggggtgtttatgatgtag----------------------
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TCATGAAGAGATCCATCCCACTGGAATGCTCAGTGTTGTTGCTAGTCTTACACCTTGGTCGGATCACAACCAGAGCCCGCGTAATATGTACCAGTGTCAGgttttttcttgcatgttgactgaaaaaggtcctataatgtattatgctcctgttatcttcaaatttaactaactgttgtgttttgttttcttctttttctcttaaaatgattggtag
upper sequence: GLYMA17G23500.1 (Glycine max), 5'ss of exon 13
lower sequence: PP1S169_131V6.1 (Physcomitrella patens), 5'ss of exon 19
TCATGAAGAAATTCATCCAACAGTAATGCTTAGTGTAGTTGCTAATCTCACACCATGGTCAGATCATAATCAGAGTCCACGAAATATGTACCAGTGTCAGgttctataatcttttgtactggtcttggtatccaaatctacgt-tagcagtatagctacatttttttcactctgggggtgtttat--gatgtag---------------------------------------------------------------------------------------------
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ACATGAAGAGATAAATGCCACAGCCTTCTTAAGTGTTGTTGCGAGTCTCACGCCATGGTCAGACCACAATCAAAGCCCCCGCAACATGTACCAGTGTCAGgtcttgc-----ctcaacccaaccccgcaatgcattttcctgtctagtcatgtttata-atctttcccgggcttgattggttgatctagtgtacagtacttttttttcttttttttctttttttagtgcttcacataatgcacataattgtttttgctgataaaggatgtgtgaatgtgttttatag
upper sequence: GLYMA17G23500.1 (Glycine max), 5'ss of exon 13
lower sequence: EFJ24096 (Selaginella moellendorffii), 5'ss of exon 5
TCATGAAGAAATTCATCCAACAGTAATGCTTAGTGTAGTTGCTAATCTCACACCATGGTCAGATCATAATCAGAGTCCACGAAATATGTACCAGTGTCAGgttctataatcttttgtactggtcttggtatccaaatctacgttagcagtatagctacatttttttcactctgggggtgtttatgatgtag
||| ||| | ||||| || | ||| | ||||| ||||| | | ||||| ||||| ||||| ||||| ||||| ||||||||||||||||| |||||| |||| | || | | | | | | | | || |||| | |||||
TCACATTGAACTGCATCCGACGGCTATGTTGAGTGTGGTTGCAAGCTTAACACCTTGGTCGGATCACAATCAAAGTCCTCGAAATATGTACCAGTGCCAGgtt-tata----cgagcgcta-ccgtaatgtttagtttttc--taacagttt--ctacag-------------------------------
upper sequence: GLYMA17G23500.1 (Glycine max), 5'ss of exon 13
lower sequence: EFJ04457 (Selaginella moellendorffii), 5'ss of exon 18
TCATGAAGAAATTCATCCAACAGTAATGCTTAGTGTAGTTGCTAATCTCACACCATGGTCAGATCATAATCAGAGTCCACGAAATATGTACCAGTGTCAGgttc-tataatcttttgtactggtcttggtatccaaatctacgttagcagtatagctacatttttttcactctgggggtgtttatgatgtag
||| ||| | ||||| || | ||| | ||||| ||||| | ||||| ||||| ||||| ||||| ||||| ||||||||||||||||| |||||| || | | | | || || | | | | |||
TCACATTGAACTGCATCCGACGGCTATGTTGAGTGTGGTTGCAAGCTCAACACCTTGGTCGGATCACAATCAAAGTCCTCGAAATATGTACCAGTGCCAGgtttatacgagcgct-acatcacgtttagtttttctaacagtttctacag------------------------------------------
upper sequence: GLYMA17G23500.1 (Glycine max), 5'ss of exon 13
lower sequence: EFJ35146 (Selaginella moellendorffii), 5'ss of exon 19
TCATGAAGAAATTCATCCAACAGTAATGCTTAGTGTAGTTGCTAATCTCACACCATGGTCAGATCATAATCAGAGTCCACGAAATATGTACCAGTGTCAGgttctataatcttttgtactggtcttggtatccaaatctacgttagcagtatagctacatttttttcactctgggggtgtttatgatgtag
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TCACATTGAACTGCATCCGACGGCTATGTTGAGTGTGGTTGCAAGCTCAACACCTTGGTCGGATCACAATCAAAGTCCTCGAAATATGTACCAGTGCCAGgtt-tata----cgagcgcta-ccgtaatgtttagtttttc--taacagttt--ctacag-------------------------------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|5058303|gb|AI736779.1|AI736779EST: CACCATGGTCAGATCATAATCAGAGTCCACGAAATATGTACCAGTGTCAG ATGGCAAAGCAAACAATGGCATTTTCTTCACAAACTATTCAACATCGTGCA
genomic: CACCATGGTCAGATCATAATCAGAGTCCACGAAATATGTACCAGTGTCAGgttctataat ... tatgatgtagATGGCAAAGCAAACAATGGCATTTTCTTCACAAACTATTCAACATCGTGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCATGAAGAAATTCATCCAACAGTAATGCTTAGTGTAGTTGCTAATCTCACACCATGGTCAGATCATAATCAGAGTCCACGAAATATGTACCAGTGTCAGgttctataatcttttgtactggtcttggtatccaaatctacgttagcagtatagctacatttttttcactctgggggtgtttatgatgtag
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