Sequence
atgc intronic sequence ATGC exonic sequenceTCACCGACAGTGAGAGACTAATTGGAGAGGCTGCCAAGAATCTGGCAGCTGTCAACCCAGAAAGGACCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaagacttactcaagttgatttttgacaatttgatttgatgggatcaatggtgactgacatttatctttttgcag
Basic information
species | Glycine max |
transcript | GLYMA05G36620.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G36620.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os02g02410.1 (Oryza sativa), 5'ss of exon 2
TCACCGACAGTGAGAGACTAATTGGAGAGGCTGCCAAGAATCTGGCAGCTGTCAACCCAGAAAGGACCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaagacttactcaagttgatttttgacaatttgatttgatgg-gatcaatggtgactgac---------atttatctttttgcag
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TCACCGATAGCGAGAGGCTCATCGGTGAGGCTGCCAAGAACCAGGCAGCTGTGAACCCAGAGAGGACCATCTTCGATGTCAAACGTCTCATTGGAAGAAAgtaatggc-actttaccctatgctcgctcttatttcctgttgttgatcactgctgcctgatctgacctgtataattattcttgcag
upper sequence: GLYMA05G36620.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G415007_T01 (Zea mays), 5'ss of exon 2
TCACCGACAGTGAGAGACTAATTGGAGAGGCTGCCAAGAATCTGGCAGCTGTCAACCCAGAAAGGACCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaagactta---ctcaagttgatttttgacaatttgatttgatg-ggatcaa---tggtgactgacatttat--ctttttgcag--
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TCACCGATAGCGAGAGGCTCATCGGTGAGGCTGCCAAGAACCAGGCAGCTGTCAACCCTGAGAGGACCATCTTTGACGTCAAGCGTCTCATCGGAAGAAAgtagtgcctctctcccacaattgcttctattatttcgtctcgctgtgggttatgtctggcgtcttacctgtaatgcccattgcttag
upper sequence: GLYMA05G36620.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G114793_T01 (Zea mays), 5'ss of exon 2
TCACCGACAGTGAGAGACTAATTGGAGAGGCTGCCAAGAATCTGGCAGCTGTCAACCCAGAAAGGACCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaagactta----ctcaagttgatttttgacaatttgatttgatgggatcaatggtgactgacatttatctttttgcag----------------
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TCACCGATAGCGAGAGGCTCATCGGTGAGGCTGCCAAGAACCAGGCAGCCGTCAACCCTGAGAGGACCATCTTTGACGTCAAGCGTCTCATCGGAAGAAAgtaacacctctctcctacagttacttctgttgaatttcgtctcgttg--tgggttatttctggcgtcttaactttagtaatgccccatttatttag
upper sequence: GLYMA05G36620.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv16s0098g01580.t01 (Vitis vinifera), 5'ss of exon 2
TCACCGACAGTGAGAGACTAATTGGAGAGGCTGCCAAGAATCTGGCAGCTGTCAACCCAGAAAGGACCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaag-----acttactcaagttgatttttgacaat-----ttgattt----gatgggatcaatggtgactgacatttatctttttgcag----------------
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TCACTGACACTGAAAGGTTGATTGGTGAGGCTGCAAAGAATCAGGCGGCTGTCAATGCCGAGAGGACTGTATTTGATGTCAAGAGACTCATTGGAAGAAAgtatgtgataaatcctttaatctcctttctgttcatattcgttgatcttttgaatgaagcccatcaaggctctaacctggttttttgccttttgttttttctgtag
upper sequence: GLYMA05G36620.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv02s0025g02140.t01 (Vitis vinifera), 5'ss of exon 2
TCACCGACAGTGAGAGACTAATTGGAGAGGCTGCCAAGAATCTGGCAGCTGTCAACCCAGAAAGGACCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaagacttac-tcaagttga--tttttgaca-----atttgatttgatgggatcaa--tggtgactgacatttat-----ctttttgcag
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TCACTGACAGTGAGAGACTGATTGGTGAGGCTGCGAAGAACCAGGCGGCTGTCAATGCCGAAAGGACTATCTTTGATGTGAAGAGGCTTATTGGAAGAAAgtaatacgtctatctatctaaagcttttggtctatgcattgtattagttggcaaggaactttttgctgaggcttttaatcacttttgacagMapped 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|9986537|gb|BE660645.1|BE660645EST: GTCAACCCAGAAAGGACCATCTTTGATGTCAAGAGACTTATTGGAAGAAA GTTCGAAGATAAGGAAGTTCAAAGAGATATGAAGCTTGTTCCTTATAAGAT
genomic: GTCAACCCAGAAAGGACCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaagactta ... ctttttgcagGTTCGAAGATAAGGAAGTTCAAAGAGATATGAAGCTTGTTCCTTATAAGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCACCGACAGTGAGAGACTAATTGGAGAGGCTGCCAAGAATCTGGCAGCTGTCAACCCAGAAAGGACCATCTTTGATGTCAAGAGACTTATTGGAAGAAAgtaagacttactcaagttgatttttgacaatttgatttgatgggatcaatggtgactgacatttatctttttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA