Sequence
atgc intronic sequence ATGC exonic sequenceCACGGATTCCAGGCTGAGACCAGACCAGCGACATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAGAAACAAAGGTTGGAAAAGAGGCAAAGAATGgtatgtttgaactctttcgtgctttgttcgagaaacgtgcattctatcctttctttttacctttcgttgtaaatttggggttcttgtttgaccatgtgcg...
Basic information
species | Glycine max |
transcript | GLYMA17G14820.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G14820.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os10g40590.1 (Oryza sativa), 5'ss of exon 9
CACGGATTCCAGGCTGAGACCAGACCAGCGACATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAGAAACAAAGGTTGGAAAAGAGGCAAAGAATGgtatgtttgaactctttcgtgctttgttcgagaaacgtgcattctatccttt--ctttttacctttcgttgtaaatttggggttcttgtttgaccatgtgcg
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AACGGATTCAAGACTCAGGCCAGATCAGCGGCATCTAGAGAATGGGGAGTACGAAAAGGCTAACTCTGAAAAATTGCGCCTGGAGACGAGGCAGAGGATGgtaagtattcttgttctaaaaatttccttaattttttt-tatcacagtttttaaattcttacctgcttcactgtactcgtacatcgaactacactgaattt-
upper sequence: GLYMA17G14820.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os08g05870.1 (Oryza sativa), 5'ss of exon 8
CACGGATTCCAGGCTGAGACCAGACCAGCGACATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAGAAACAAAGGTTGGAAAAGAGGCAAAGAATGgtatgtttgaactctttcgtgctttgttcgagaaacg-tgcattctatcctttctttttacctttcgttgtaaatttggggttcttg---tttgaccatgtgcg------------
|| ||||| |||| || ||||||||||| ||||||||||| || ||||| |||||||| || |||||| | ||||||||| | |||||||||||||||| |||| || || ||| | ||| | | | | | ||| | | | | | | ||| || ||||| | |
TACTGATTCACGGCTAAGGCCAGACCAGCGGCATCTAGAGAACGGTGAATATGAGAAGGCAAACGCGGAGAAGCTGAGGTTGGAACGACGACAAAGAATGgtatgttctctctctctctctctctgtgaaaagaactctttaagatgaacatagatttagcttgtagaaaccatcacgcagttgctgcattttgattgtaatctgctttgtcgcag
upper sequence: GLYMA17G14820.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G402653_T03 (Zea mays), 5'ss of exon 8
CACGGATTCCAGGCTGAGACCAGACCAGCGACATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAGAAACAAAGGTTGGAAAAGAGGCAAAGAATGgtatgtttgaactctttcgtgctttgttcgagaaacgtgcattctatcctttctttttacc--tttcgttgtaaatttggggttcttgtttgaccatgtgcg
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TACTGATTCACGGCTGAGACCAGACCAGCGCCACCTAGAGAATGGTGAATACGAGAAAGCGAATGCAGAGAAGCTGAGGTTGGAACGACGGCAAAGAATGgtatcc----gctctcgctt-catagatcacaatccatacatgttgtttcttcatgttctctgtctcattgcag----------------------------
upper sequence: GLYMA17G14820.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G061099_T01 (Zea mays), 5'ss of exon 9
CACGGATTCCAGGCTGAGACCAGACCAGCGACATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAGAAACAAAGGTTGGAAAAGAGGCAAAGAATGgt-----atgtttga----actctttcgtgctttgttcgagaaacgtgcattctatcctttctttttacctttcgttgtaaatttggggttcttgtttgaccatgtgcg
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GACGGATTCAAGGCTGAGACCAGATCAACGGCACCTGGAGAATGGGGAGTACGAGAAGGCCAATGCTGAAAAACTGCGCCTCGAGACACAGCAACGGATGgttgtacacattttacattgctatactttttttttctcatgaaagctacatcatgatcactgatcgactccatttctacattgtttgggcactgcttgca---------
upper sequence: GLYMA17G14820.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G409265_T03 (Zea mays), 5'ss of exon 4
CACGGATTCCAGGCTGAGACCAGACCAGCGACATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAGAAACAAAGGTTGGAAAAGAGGCAAAGAATGgtatgtttgaactctttcgtgctttg---ttcgagaaacgtgcattctatcctttctttttacctttcgttgtaaatttggggttcttgtttg-accatgtgcg-------------------------------------------------------------------------------------------
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AACGGATTCAAGGCTGAGACCAGATCAACGTCACCTGGAGAATGGGGAGTACGAGAAGGCCAATGCTGAAAAACTGCGTCTCGAGACACGGCAGCGGATGgt-tgtacccattttgcattgctctgcttttcatgaaagttacatcatgatcactgattgactccattcttatattgtttgaatacctgcctggaccttgtggtcttggacgtacgtggtggactgaattccatcgttggatgtctgatgcttttctgccctataactgaagttttgtgtggtcgtcgtctgcag
upper sequence: GLYMA17G14820.1 (Glycine max), 5'ss of exon 10
lower sequence: AT4G22540.3 (Arabidopsis thaliana), 5'ss of exon 9
CACGGATTCCAGGCTGAGACCAGACCAGCGACATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAGAAACAAAGGTTGGAAAAGAGGCAAAGAATGgtatgtttgaactctttcgtgctttgttcgagaaacgtgcattctatcctttctttttacctttcgttgtaaatttggggt----tcttgtttgaccatgtgcg
||| || || ||||| |||||||| || || ||||| |||||||| ||||| |||||||| || | ||||||||| |||| |||| ||||||||||||||| || | || | | | || || | | || | | | ||| ||||| | | || || | | | ||| | | ||
CACAGACTCTAGGCTCAGACCAGATCAACGGCATCTTGAGAATGGTGAATATGAGAAGGCGAACTTAGAGAAACAACGGTTAGAAAGAAGGCAAAGAATGgtacgtc--acctatacatttcactggtccatgcatatgtaagc--cctgaatgaattaactttcagagaacatgaggactaatacatagaatgagcttctgtc
upper sequence: GLYMA17G14820.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv02s0154g00250.t01 (Vitis vinifera), 5'ss of exon 8
CACGGATTCCAGGCTGAGACCAGACCAGCGACATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAGAAACAAAGGTTGGAAAAGAGGCAAAGAATGgtatgtttgaactctttcgtgctttgttcgagaaacgtgcattctatcctt--tctttttacctttcgttgtaa--atttggggttcttgtttgaccatgtgcg
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CACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGAAGCGGCAGAGGATGgtatgagt-agctcctcctttccctatttcttcaa--tccattttattcatggcatcattgtttgatgattttattatttaaccaaattggagattcttgtgc-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|193447668|gb|FK415417.1|FK415417EST: ACGAGAAGGCTAATATGGAGAAACAAAGGTTGGAAAAGAGGCAAAGAATG TCAAGGAAAATGCAAGAAAATGGATGGCAGCCTAGGTGGTTCCACAGAGAA
genomic: ACGAGAAGGCTAATATGGAGAAACAAAGGTTGGAAAAGAGGCAAAGAATGgtatgtttga ... tctcatacagTCAAGGAAAATGCAAGAAAATGGATGGCAGCCTAGGTGGTTCCACAGAGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CACGGATTCCAGGCTGAGACCAGACCAGCGACATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAGAAACAAAGGTTGGAAAAGAGGCAAAGAATGgtatgtttgaactctttcgtgctttgttcgagaaacgtgcattctatcctttctttttacctttcgttgtaaatttggggttcttgtttgaccatgtgcg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttggggt