Sequence
atgc intronic sequence ATGC exonic sequencegtattcttttaacatgcaatcgctgtatctatccccccctctttctttgttgatgaatgccatttccacttcttgaaaattagaataatgcttctttctaactttatatcccttcctccttcacttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTGGTGGTGCTCAAGGAGGGCAAACTGACATAGATATTCAG
Basic information
species | Glycine max |
transcript | GLYMA10G01550.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G01550.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G121456_T03 (Zea mays), 3'ss of exon 7
gtattcttttaacatgcaatcgctgtatctatccccccctctttctttgttgatgaatgccatttccactt--cttgaaaattagaataatgcttctttctaactttatatcccttcctccttcacttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTGGTGGTGCTCAAGGAGGGCAAACTGACATAGATATTCAG
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---------------------------------gtaccagtagtgattgctaataaaatacatgtaggtgtagcttacatatccaagcttcg-ttaatagaagtcataaaaccggtgaaaatataatgc---agGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTGGAGGGGCCCAAGGACAGGAGACTGATCTTGAGATTCAG
upper sequence: GLYMA10G01550.2 (Glycine max), 3'ss of exon 7
lower sequence: AT1G02560.1 (Arabidopsis thaliana), 3'ss of exon 7
gtattcttttaacatgcaatcgctgtatctatccccccctctttctttgttgatgaatgccatttccacttcttgaaaattagaataatgcttctttctaactttatatcccttcctccttcacttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTGGTGGTGCTCAAGGAGGGCAAACTGACATAGATATTCAG
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------------------------gtagtc-tcttaatcctttcaatcattagtaaaaatcttttag------tgaagtcttatgaatttcatttttctgatgtgagtcatgctttattcgtaaaactgtagGAAAAAGATACAGTCTACCAAACTCAAGGATAATGATCCATCAGCCGCTTGGTGGAGCTCAAGGTGGCCAAACCGACATTGACATTCAG
upper sequence: GLYMA10G01550.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv07s0005g01530.t01 (Vitis vinifera), 3'ss of exon 7
gtattcttttaacatgcaatcgctgtatcta-tccccccctctttctttgttgatgaatgccatttccacttcttgaaaattagaataatgcttctttctaactttatatccctt-cctccttcacttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTGGTGGTGCTCAAGGAGGGCAAACTGACATAGATATTCAG
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------------------------gtaagtaatttcctaggcttttgttgttagtggtttggagttccacttcgtggca-tatgctttttggtgtgctttgacat-gtgtctgtcacctccctcttaactgaagGAAAAAGATATAGCTTGCCAAACTCAAGGATCATGATCCATCAGCCTCTCGGTGGAGCTCAAGGTGGGCAAACTGACATAGATATTCAGMapped 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|192320644|gb|FK012726.1|FK012726EST: CCTTTTCATCTGCAGTATGGGAGCTTTTCTGCTGAGCGCAGGGACAAAAG GAAAGAGGTACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTG
genomic: CCTTTTCATCTGCAGTATGGGAGCTTTTCTGCTGAGCGCAGGGACAAAAGgtattctttt ... acttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTG
EST:
gi|22929836|gb|BU546975.1|BU546975EST: AGTATGGGAGCTTTTCTGCTGAGCGCAGGGACAAAAG GAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTG
genomic: AGTATGGGAGCTTTTCTGCTGAGCGCAGGGACAAAAGgtattctttt ... acttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTG
EST:
gi|209714325|gb|BW665587.1|BW665587EST: AGTATGGGAGCTTTTCTGCTGAGCGCAGGGACAAAAG GAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTG
genomic: AGTATGGGAGCTTTTCTGCTGAGCGCAGGGACAAAAGgtattctttt ... acttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattagaataatgcttctttctaactttatatcccttcctccttcacttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTGGTGGTGCTCAAGGAGGGCAAACTGACATAGATATTCAG
ttctaac putative branch site (score: 1)
cttctttctaacttta CT-rich tract
tttctaactttatat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattcttttaacatgcaatcgctgtatctatccccccctctttctttgttgatgaatgccatttccacttcttgaaaattagaataatgcttctttctaactttatatcccttcctccttcacttctgaagGAAAGAGATACAGCTTGCCAAATTCAAGGATAATGATTCATCAACCGCTTGGTGGTGCTCAAGGAGGGCAAACTGACATAGATATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG