Sequence
atgc intronic sequence ATGC exonic sequenceTATGCTTAATGAGCGCAGTGATGTATATAGCTTTGGAGTTCTTCTCATGGAGATAATCACAGGAAGAAGCCCCATTGATTATTCAAGACCACCTGGAGAGgtgattctgggttttgtcaatgttttcattagttcattccataagaaacaccatcatgaagtcttaactatgtttttgttgatgtgcctcag
Basic information
species | Glycine max |
transcript | GLYMA11G12570.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G12570.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G34500.1 (Arabidopsis thaliana), 5'ss of exon 5
TATGCTTAATGAGCGCAGTGATGTATATAGCTTTGGAGTTCTTCTCATGGAGATAATCACAGGAAGAAGCCCCATTGATTATTCAAGACCACCTGGAGAGgtgattctgggt-tttgtcaatgttttcattagttcattccataagaaacaccatcatgaagtcttaactatgtttttgttgatgtgcctcag
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TATGCTCAATGAGTGTAGTGATGTCTACAGTTTCGGTGTTCTGCTCATGGAGATCATTACAGGAAGGAGCCCAGTTGATTATTCAAGACCGCCTGGCGAGgtaattgaaaacgtttgtaagtaacaaaacctttacctgcca-agaccatacgcaaataattgtttgttgaaacatttgcag-----------
upper sequence: GLYMA11G12570.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv03s0063g02510.t01 (Vitis vinifera), 5'ss of exon 5
TATGCTTAATGAGCGCAGTGATGTATATAGCTTTGGAGTTCTTCTCATGGAGATAATCACAGGAAGAAGCCCCATTGATTATTCAAGACCACCTGGAGAGgtgattctgggttttgt-caatgttttcattagttcattccataagaaacaccatcatgaagtcttaactatgtttttgttga-tgtgcctcag
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TATGCTTAGTGAAGGGAGTGATGTCTATAGTTTTGGAGTTCTACTTATGGAGATAATTACTGGAAGGAGCCCGGTTGATTATTCCAGACCAGTTGGAGAGgtgaaaacaagtttttttccatggttgtgtgcatcaatttcata-----cactgctactctgtcataacactattctcattgcctgggtttcag
upper sequence: GLYMA11G12570.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S358_6V6.1 (Physcomitrella patens), 5'ss of exon 5
TATGCTTAATGAGCGCAGTGATGTATATAGCTTTGGAGTTCTTCTCATGGAGATAATCACAGGAAGAAGCCCCATTGATTATTCAAGACCACCTGGAGAGgt----gattctgggttttgtcaatgttttcatt---agttcattccataagaaacaccat-catgaagtcttaactatgtt-tttgttgatgtgcctcag------------------------------
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CCTGCTGAACGAGCGAAGTGATGTGTACAGCTTTGGGGTGCTTCTCATGGAGATTATCACCGGGCGAGATCCTGTGGACTACAACCGTGCTGCTGGAGAGgtaagagattctggtcacagaagccatttacgggcgaaactttctacgccagcgacacttcgtgtgcagtcttaagggactagcttcctaccatgtcgcaatgtgtaacatatatcgaatgcgtggtgcag
upper sequence: GLYMA11G12570.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S568_2V6.1 (Physcomitrella patens), 5'ss of exon 6
TATGCTTAATGAGCGCAGTGATGTATATAGCTTTGGAGTTCTTCTCATGGAGATAATCACAGGAAGAAGCCCCATTGATTATTCAAGACCACCTGGAGAGgtgattctgggttttgtcaatgttttcattagttcattccataagaaacaccatcatgaagtcttaacta-tgtttttgttgatgtgcctcag------------------------------------------------------
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CCTGCTGAATGAGCGAAGCGATGTGTACAGCTTTGGGGTGCTTCTCATGGAGATCATCACGGGGCGAGATCCTGTGGATTACAACCGCGCTGCGGGAGAGgtaggaacg--tttggttttagtcgtcaccacttaacagaaatcaatcttctgtgctgatattgtgctcaatgcaagtgt-ggggtgcacgaaggccgtgtggctaacagtgcaatctacgtgatatgttacaaatatgacctgcag
upper sequence: GLYMA11G12570.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ27863 (Selaginella moellendorffii), 5'ss of exon 6
TATGCTTAATGAGCGCAGTGATGTATATAGCTTTGGAGTTCTTCTCATGGAGATAATCACAGGAAGAAGCCCCATTGATTATTCAAGACCACCTGGAGAGgtgattctgggttttgtcaatgttttcattagttcattccataagaaacaccatcatgaagtcttaactatgtttttgttgatgtgcctcag
| | || || ||| | || || || ||||||||||||||||||||||||||||| ||||| || ||| || | ||||| ||| |||| | | |||||| | | | | | | | |||| ||| | | | || |||| | |
TCTACTCAACGAGAGAAGCGACGTTTATAGCTTTGGAGTTCTTCTCATGGAGATGATCACTGGGAGAGATCCAGTCGATTACTCACGACCTTCGGCAGAGgtaa----agaatctctagtttctctcatcgattctt--------agatttgctcgctcgatcttttccag---------------------
upper sequence: GLYMA11G12570.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ36811 (Selaginella moellendorffii), 5'ss of exon 6
TATGCTTAATGAGCGCAGTGATGTATATAGCTTTGGAGTTCTTCTCATGGAGATAATCACAGGAAGAAGCCCCATTGATTATTCAAGACCACCTGGAGAGgtgattctgggttttgtcaatgttttcattagttcattccataagaaacaccatcatgaagtcttaactatgtttttgttgatgtgcctcag
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TCTACTCAACGAGAGAAGCGACGTTTATAGCTTTGGAGTTCTTCTCATGGAGATGATCACTGGGAGAGATCCAGTCGATTACTCACGACCTTCGGCAGAGgtaa----agaatctctagtttttctcatcgattctt------agatttgctctctcga--tcttttctag---------------------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|18730107|gb|BM525686.1|BM525686EST: AGATAATCACAGGAAGAAGCCCCATTGATTATTCAAGACCACCTGGAGAG ATGAATTTGGTAGATTGGTTTAAGGCAATGGTAGCAAGTCGTCGCAGTGAG
genomic: AGATAATCACAGGAAGAAGCCCCATTGATTATTCAAGACCACCTGGAGAGgtgattctgg ... tgtgcctcagATGAATTTGGTAGATTGGTTTAAGGCAATGGTAGCAAGTCGTCGCAGTGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATGCTTAATGAGCGCAGTGATGTATATAGCTTTGGAGTTCTTCTCATGGAGATAATCACAGGAAGAAGCCCCATTGATTATTCAAGACCACCTGGAGAGgtgattctgggttttgtcaatgttttcattagttcattccataagaaacaccatcatgaagtcttaactatgtttttgttgatgtgcctcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA