Sequence
atgc intronic sequence ATGC exonic sequenceTGTGTATGAAGTGCTTGAGGGCTATAACTGCACTATTTTTGCGTATGGACAGACCGGGACAGGGAAGACATACACCATGGAAGGAGGTGCAAGAAAGAAGgttattcgtgtcacctcataggctccttatggtgttttcctattgctttttattgaaatctatttttttctttgcttcttgattctgcag
Basic information
species | Glycine max |
transcript | GLYMA15G04830.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 5
TGTGTATGAAGTGCTTGAGGGCTATAACTGCACTATTTTTGCGTATGGACAGACCGGGACAGGGAAGACATACACCATGGAAGGAGGTGCAAGAAAGAAGgtta---ttcgtgtcacctcataggctccttatggtgttttcctattgctttttattgaaatctatttt--tttctttgcttcttgattctgcag
||| || |||||||||||||| ||||| |||||||| ||||| || || || || ||||| || ||||| ||||| ||||||| || | ||| | | | | | | | | | | | ||| ||||| | | | || || ||| | | | |||
------TGAGGTCCTTGAGGGCTATAATTGCACAATTTTTGCTTATGGGCAAACTGGTACTGGGAAAACCTACACAATGGAGGGAGGTGGAACTAGAAAGACCAAGgtaaaaaaaaagtgcttgagatcatttaaaatcgcatttttggtttttctgcatgttctttacaattgacttgtgcttgtaacatccag
upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G45850.1 (Arabidopsis thaliana), 5'ss of exon 4
TGTGTATGAAGTGCTTGAGGGCTATAACTGCACTATTTTTGCGTATGGACAGACCGGGACAGGGAAGACATACACCATGGAAGGAGGTGCAAGAAAGAAGgttattcgtgtcacctcataggctccttatggtgttttcctattgctttttattgaaatctattttt--ttctttgcttc--ttgat-tctgcag
||||| |||||| |||||||| || ||||| || || ||||||||||| |||||||| || || ||||| || || ||||||||||||||||| || |||||| | | | ||| | | | ||| | |||| ||||| | | ||| | ||| | | || ||
TGTGTTTGAAGTACTTGAGGGTTACAACTGTACCATATTTGCGTATGGTCAGACCGGAACTGGAAAGACGTATACGATGGAAGGAGGTGCAAGGAAAAAGgttggctcctctaaa--acgaacctaacatgattctgtatgattcagatgtatttgtcatggtttttaataaatagctacggttgctatttgtag
upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 3
lower sequence: AT2G28620.1 (Arabidopsis thaliana), 5'ss of exon 3
TGTGTATGAAGTGCTTGAGGGCTATAACTGCACTATTTTTGCGTATGGACAGACCGGGACAGGGAAGACATACACCATGGAAGGAGGTGCAAGAAAGAAGgttattcgtgtcacctcataggctccttatggtgttttcctattgctttttattgaaatctatttttttc---tttgcttcttgattctgcag
||| | ||| || ||||| || ||||||||||| || ||||| ||||| || || || || || ||||||||||| ||||||||||| |||||||| ||||| | | | || | | | || |||| || || | | | |||| || ||| | | ||||| | |||
TGTCTTTGAGGTTCTTGATGGGTATAACTGCACCATCTTTGCATATGGGCAAACAGGAACTGGTAAGACATACACAATGGAAGGAGGAGCAAGAAAAAAGgt-acgctaactattccaagaacatcatttgaagtttctttactgatggtaactgaatcctcatttgatggaacatatttcttttgttgccag
upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 4
TGTGTATGAAGTGCTTGAGGGCTATAACTGCACTATTTTTGCGTATGGACAGACCGGGACAGGGAAGACATACACCATGGAAGGAGGTGCAAGAAAGAAGgttattcgtgtcacctcataggctccttatggtgttttcctattgctttttattgaaatctatttttttctttgcttcttgattctgcag
|| ||||||| |||||||||||||| ||||| || ||||| ||||| ||||| |||||||| || ||||| || ||||||||||| ||||| || |||||| | | ||| |||| |||| ||| | || ||||| |||| | || || ||||| |||
AGTAAATGAAGTTCTTGAGGGCTATAATTGCACAATATTTGCCTATGGTCAGACAGGGACAGGCAAAACATATACAATGGAAGGAGGCGCAAGGAAAAAGgtt-taattttcattacatatatcaactatg-tgtacttttaatgcttcccattggtttaatttccatttgatgctttttgtag------
upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S158_7V6.1 (Physcomitrella patens), 5'ss of exon 3
TGTGTATGAAGTGCTTGAGGGCTATAACTGCACTATTTTTGCGTATGGACAGACCGGGACAGGGAAGACATACACCATGGAAGGAGGTGCAAGAAAGA--AGgttattcgtgtcacctcataggct---ccttatggtgttttcctattgctttttattgaaatctatttttttctt-tgcttcttgattctgcag------------------------------------------------------------------------
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---GAACGAGGTCCTGGACGGTTTTAACTGCACGATATTTGCCTATGGCCAGACTGGGACAGGGAAAACCTACACCATGGAAGGATCGGGAAGAAAATCCAAGgtattgggttgtcctggtttgcgaagtcttttgaacttgctgcgctaccgtctacctcatccgcttgatttcgagtgtcttgcggaaaggccaacttgattgatgagcttatgttgaattgaagtgggaaatatatacttgtctaagacgaataatgtcttacag
upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S315_14V6.1 (Physcomitrella patens), 5'ss of exon 3
TGTGTATGAAGTGCTTGAGGGCTATAACTGCACTATTTTTGCGTATGGACAGACCGGGACAGGGAAGACATACACCATGGAAGGAGGTGCAAGAAAG---AAGgttattcgtgtcacctcataggctccttatggtgttttcctattgctttttattgaaatctatttttttctttgcttcttgattctgcag-------------------------------------------------------------------------------
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---CAACGAGGCCTTAGATGGTTTCAACTGCACTATATTTGCTTATGGACAGACTGGGACAGGGAAAACCTACACCATGGAAGGATTAGGAAGAAAGTCGAAGgttaagtatcttccagggtgggaaagtcgttgaatttttct-ctgggtcacatagaaactttcgcatgtgtctacctcttg--ccaggaggctagcagtatcaaagaacattggaatggatcaaagttgggatccgattgttgtctaatactgaaaaattacattgcag
upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S6_143V6.1 (Physcomitrella patens), 5'ss of exon 3
TGTGTATGAAGTGCTTGAGGGCTATAACTGCACTATTTTTGCGTATGGACAGACCGGGACAGGGAAGACATACACCATGGAAGGAGGTGCAAGAAAGAAGgttattcgtgtcacctcataggctccttatggtgttttcctattgct---ttttattgaaat-ctatttttttctttgcttcttgattctgcag-----------------------------------------
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---CAACGAGGTTTTGGATGGCTACAACTGCACTATTTTTGCATATGGGCAGACCGGGACCGGAAAGACCTTCACTATGGAAGG----GTCAGGAATGAAGTCGAAGgtagtaagcctcacgtacccctgaacgtttatatgttgctcagtttcataaaggcgttgtcactcagctaatttactggtcgttgaatggtcgaaacataggaatcatcatttacaatttctttgcag
upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ12240 (Selaginella moellendorffii), 5'ss of exon 3
TGTGTATGAAGTGCTTGAGGGCTATAACTGCACTATTTTTGCGTATGGACAGACCGGGACAGGGAAGACATACACCATGGAAGGAGGTGCAAGAAAGA--AGgttattcgtgtcacctcataggctccttatggtgttttcctattgctttttattgaaatctatttttttctttgcttcttgattctgcag
| | ||||| || || |||| ||||| || ||||||||||||||||||||||| || ||||| || ||||| ||||| |||| | |||||| | | ||| | || | | | || ||| | || | || | || |
---GAACGAAGTTCTCGAAGGCTTCAACTGTACCATTTTTGCGTATGGACAGACCGGAACGGGGAAAACTTACACTATGGAGGGAGCAGGAAGAAAACCCAAGgtatgaatatcgatgcctttcttatctagaatgtctatctcatctttatggttccag--------------------------------
upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ25853 (Selaginella moellendorffii), 5'ss of exon 3
TGTGTATGAAGTGCTTGAGGGCTATAACTGCACTATTTTTGCGTATGGACAGACCGGGACAGGGAAGACATACACCATGGAAGGAGGTGCAAGAAAGA--AGgttattcgtgtcacctcataggctccttatggtgttttcctattgctttttattgaaatctatttttttctttgcttcttgattctgcag
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---GAACGAAGTTCTCGAAGGCTTCAACTGTACCATTTTTGCGTATGGACAGACCGGAACGGGGAAAACTTACACTATGGAGGGAGCAGGAAGAAAACCCAAGgtatgaatatcgatgcctttcttatctagaatgt---cctatctcatctttatggttccag----------------------------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|193464794|gb|FK430104.1|FK430104EST: ACAGGGAAGACATACACCATGGAAGGAGGTGCAAGAAAGAAG AATGGCGAATTTCCGAGTGATGCTGGTGTCATCCCAAGAGCTGTGAAGCAG
genomic: ACAGGGAAGACATACACCATGGAAGGAGGTGCAAGAAAGAAGgttattcgtg ... gattctgcagAATGGCGAATTTCCGAGTGATGCTGGTGTCATCCCAAGAGCTGTGAAGCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTGTATGAAGTGCTTGAGGGCTATAACTGCACTATTTTTGCGTATGGACAGACCGGGACAGGGAAGACATACACCATGGAAGGAGGTGCAAGAAAGAAGgttattcgtgtcacctcataggctccttatggtgttttcctattgctttttattgaaatctatttttttctttgcttcttgattctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG