Sequence
atgc intronic sequence ATGC exonic sequenceTCTCTTAAACATGAAGATGTGGAGAATATAGGATATGTAATACCCACCCCAGTTATCCTACATTTTATCCGAGACTATGAAAAGAATGGGGCATATACAGgtatctaaaaggatgttttacttctttgtctatttcatacccttctccttcctaaagaagatatcatttactcttgctcttgtgtctacttagaggaaat...
Basic information
species | Glycine max |
transcript | GLYMA01G16820.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G16820.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g50880.1 (Oryza sativa), 5'ss of exon 3
TCTCTTAAACATGAAGATGTGGAGAATATAGGATATGTAATACCCACCCCAGTTATCCTACATTTTATCCGAGACTATGAAAAGAATGGGGCATATACAGgtatctaaaaggatgttttacttctttgtctatttcatacccttctccttcctaaagaagatatcatttactcttgctcttgtgtctacttagaggaaat----
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TCTCTCAAACATGAAGATGCAGAGAATATAGGTTATGTGATACCCACCCCAGTTATTATGCATTTCATTCAAGACTATGAAAAGTCTGGAGAATATACAGgtaaatgctat-acaacttaattgcatgaatatgccatttacttctattgtat---gatcatggcccttcttcttttcttttagtataattacctctgtttggg
upper sequence: GLYMA01G16820.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os06g12780.1 (Oryza sativa), 5'ss of exon 3
TCTCTTAAACATGAAGATGTGGAGAATATAGGATATGTAATACCCACCCCAGTTATCCTACATTTTATCCGAGACTATGAAAAGAATGGGGCATATACAGgtatctaaaaggatgttttacttctttgtctatttcatacccttctccttcctaaagaagatatcatttactcttgctcttgtgtctacttagaggaaat------
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TCTCTTAAACACGAAGATGTAGAAAACATAGGCTACGTCATACCCACCCCAGTGATTAATCACTTCATTCAAGACTACGAAAAATCTGGGGAGTACACAGgta----aatctttatattcttagcgtatgaaatttagttctttgggagttaaacttaagggggcacatgtgatggcacatgaatggaa--aatggatgctcgttg
upper sequence: GLYMA01G16820.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G165969_T01 (Zea mays), 5'ss of exon 4
TCTCTTAAACATGAAGATGTGGAGAATATAGGATATGTAATACCCACCCCAGTTATCCTACATTTTATCCGAGACTATGAAAAGAATGGGGCATATACAGgtatctaaaaggatgttttacttctttgtctatttcataccctt---ctccttcctaaagaagatatcatttactcttgctcttgt--gtctacttagaggaaat
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TCTCTTAAACATGAAGATGCAGAGAACATAGGCTATGTTATACCCACCCCAGTTATTAACCACTTCATTGAAGATTACAAAAAATCTGGAGAATACACAGgtaccttcc----tgttctatttttgcatacgatttattgtcttgagcagtgttcttaaggcgcctaggcgagcaagtgcaccagacaaccgccttagcgccta-
upper sequence: GLYMA01G16820.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G877597_T01 (Zea mays), 5'ss of exon 1
-TCTCTTAAACATGAAGATGTGGAGAATATAGGATATGTAATACCCACCCCAGTTATCCTACATTTTATCCGAGACTATGAAAAGAATGGGGCATATACAGgtatctaaaaggatgttttacttctttgtctatttcatacccttctccttcctaaagaagatat-catttactcttgct-cttgtgtctact-tagaggaaat--
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GTCTCTTAAACATGAAGATGCGGAGAACATAGGTTATGTGATACCGACTCCAGTTATTACACATTTCATTGAGGACTACAAAAATC-TAGAGAATACACAGgta----atatgctcttttctgtaattactgggagta-attgttggttttattagcatgatcatgcatttgggtccacagtctacaactgttacaaaaataatgg
upper sequence: GLYMA01G16820.1 (Glycine max), 5'ss of exon 3
lower sequence: AC212112.4_FGT002 (Zea mays), 5'ss of exon 3
TCTCTTAAACATGAAGATGTGGAGAATATAGGATATGTAATACCCACCCCAGTTATCCTACATTTTATCCGAGACTATGAAAAGAATGGGGCATATACAGgtatctaaaaggatgttttacttctttgtctatttcatacccttctccttcctaaagaagatat-catttactcttgct-cttgtgtctact-tagaggaaat--
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TCTCTTAAACATGAAGATGCGGAGAACATAGGTTATGTGATACCGACTCCAGTTATTACACATTTCATTGAGGACTACAAAAAATCTGGAGAATACACAGgta----atatgctcttttctgtaattactgggagta-attgttggttttattagcatgatcatgcatttgggtccgcagtctacaactgttacaaaaacaatgg
upper sequence: GLYMA01G16820.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G144501_T02 (Zea mays), 5'ss of exon 3
TCTCTTAAACATGAAGATGTGGAGAATATAGGATATGTAATACCCACCCCAGTTATCCTACATTTTATCCGAGACTATGAAAAGAATGGGGCATATACAGgtatc-------taaaaggatgttttacttctttgtctattt-------catacccttctccttcctaaagaagatatcatttactcttgctcttgtgtctacttagaggaaat
||||||||||||||||||| ||||||||||| ||||| ||||| || |||||||| |||||| ||| ||||| |||| ||| | ||| |||||||| | || | || | | | | || | || | | | || || || | | |||| | || |||| | |
TCTCTTAAACATGAAGATGCCGAGAATATAGGCTATGTGATACCGACTCCAGTTATTACACATTTCATCGAGGACTACAAAAATTCTGGAGGATACACAGgtattatgcccttttcagttttattagcataatcatgcatctgggtctacagtctactattgttattagagcaatgaacattgttttttattcttatttt--------------
upper sequence: GLYMA01G16820.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G015959_T01 (Zea mays), 5'ss of exon 3
TCTCTTAAACATGAAGATGTGGAGAATATAGGATATGTAATACCCACCCCAGTTATCCTACATTTTATCCGAGACTATGAAAAGAATGGGGCATATACAGgtatctaaaaggatgttttacttctttgtctatttcatacccttctccttcctaaagaagatat-catttactcttgct-cttgtgtctact-tagaggaaat--
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TCTCTTAAACATGAAGATGCGGAGAACATATGTTATGTGATACCGACTCCAGTTATTACACATTTCATTGAGGACTACAAAAAATCTGGAGAATACACAGgta----atatgctcttttctgtaattactgggagta-attgttggttttattagcatgatcatgcatttgggtccacagtctacaactgttacaaaaacaatgg
upper sequence: GLYMA01G16820.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv14s0066g01660.t01 (Vitis vinifera), 5'ss of exon 3
TCTCTTAAACATGAAGATGTGGAGAATATAGGATATGTAATACCCACCCCAGTTATCCTACATTTTATCCGAGACTATGAAAAGAATGGGGCATATACAGgtatctaaaaggatgttttacttctttgtctatttcatacccttctccttcctaaagaagatatcatt-tactcttgctcttgtgtctacttagaggaaat
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TCCCTTAAACATGAAGATGTAGAGAATATAGGTTATGTCATACCAACGCCAGTTATTATGCACTTCATCCGGGATTATGAGAAGAATGGTGCATATACAGgtgcatcagagtgtagtcttgtgcttttcagtttgtgtctgttttaactctcacgagttactctctttatataattatctaaatgtgttcttgttggcta-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|15203292|gb|BI426060.1|BI426060EST: AGTTATCCTTTATTTTATCCGAGACTATGAAAAGAATGGGGCATATACAG GATTTCCAATCCTTGGAGTTGAGTGGCAGAAGATGGAAAATCCTGATTTAC
genomic: AGTTATCCTACATTTTATCCGAGACTATGAAAAGAATGGGGCATATACAGgtatctaaaa ... tggctgtcagGATTTCCAATCCTTGGAGTTGAGTGGCAGAAGATGGAAAATCCTGATTTAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTCTTAAACATGAAGATGTGGAGAATATAGGATATGTAATACCCACCCCAGTTATCCTACATTTTATCCGAGACTATGAAAAGAATGGGGCATATACAGgtatctaaaaggatgttttacttctttgtctatttcatacccttctccttcctaaagaagatatcatttactcttgctcttgtgtctacttagaggaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctccttc