Sequence
atgc intronic sequence ATGC exonic sequencegtaattacctttcctgttctgtgcttctaatgaatgaaattaccttgcatgtttaaaagtaattgaatttcaatcaaattgagcagGAGAGATGTCATTGATGAAGATGGATGGCTACATACTGGAGATATTGGGACGTGGTTACCTGGTGGTCGTCTCAAAATTATTGATAG
Basic information
species | Glycine max |
transcript | GLYMA10G39540.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G39540.1 (Glycine max), 3'ss of exon 17
lower sequence: GRMZM2G059381_T03 (Zea mays), 3'ss of exon 4
gtaattacctttcctgttctgtgcttcta-atgaatgaaattaccttgcatgtttaaaagtaattgaatttcaatcaaattgagcagGAGAGATGTCATTGATGAAGATGGATGGCTACATACTGGAGATATTGGGACGTGGTTACCTGGTGGTCGTCTCAAAATTATTGATAG
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gtaacttgttatcattacacatctatttacatcctttaaataaatacatccattaaactttgat-aaatgtatttgaaaacctgcagAAGAGAGGTCATTGATGAGGATGGTTGGTTACATACTGGAGACATAGGTTTGTGGCTGCCTGGAGGGCGTCTAAAAATTATAGATAG
upper sequence: GLYMA10G39540.1 (Glycine max), 3'ss of exon 17
lower sequence: AT3G05970.1 (Arabidopsis thaliana), 3'ss of exon 17
--gtaattacctttcctgttctgtgcttcta----atgaatgaaattaccttgcatgtttaaaagtaattgaatttcaatcaaattgagcagGAGAGATGTCATTGATGAAGATGGATGGCTACATACTGGAGATATTGGGACGTGGTTACCTGGTGGTCGTCTCAAAATTATTGATAG
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gtataaacacctactgcattggaaattcctctttcactaaccaaagtgtaccaaaagtttaa--ttatttcagtaaaacgtattattttcagGAAAGAGGTGATTGATGAAGATGGATGGCTTCACACTGGAGATATAGGTCTGTGGCTGCCGGGAGGACGTCTAAAAATTATTGACAG
upper sequence: GLYMA10G39540.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv05s0020g03080.t01 (Vitis vinifera), 3'ss of exon 17
gtaattacctttcctgttctg-tgcttctaatgaatgaaat-taccttg-catgtttaaaagtaattgaattt-caatcaaattgagcagGAGAGATGTCATTGATGAAGATGGATGGCTACATACTGGAGATATTGGGACGTGGTTACCTGGTGGTCGTCTCAAAATTATTGATAG
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gtacccaccttgcctgttctgctggttcttttgaatgttgtgcattttgtcaaaattggatacatctgattatgtgatcaaattgaacagGAGAGAGGTAATTGATGAAGATGGATGGCTTCATACGGGAGACATAGGTTTATGGTTACCTGGAGGTCGCCTAAAGATCATTGATAG
upper sequence: GLYMA10G39540.1 (Glycine max), 3'ss of exon 17
lower sequence: PP1S33_126V6.1 (Physcomitrella patens), 3'ss of exon 20
------------------------------------------------------gtaattacctttcct-gttctgtgcttc-----taatgaa----------------tgaaatt---accttgcatgtttaaaa--gtaattgaatttca-atcaaattga----gcagGAGAGATGTCATTGATGAAGATGGATGGCTACATACTGGAGATATTGGGACGTGGTTACCTGGTGGTCGTCTCAAAATTATTGATAG
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gtatcactcgtgttctctttccacatatctttctatacttggctatacccaatcgcaaatgccttttttcattttaagtgtgaaagataatagagcaatcacttgggctgtaaaatttctacccagtacgtttcaaatggaagctgactttcacatctatttttcattgcagACGGGAGATTTTTGATGAAGATGGATGGCTACATACTGGCGACATCGGGTGTTGGTTGCCAGGTGGTCGACTCAAAATCATTGATAG
upper sequence: GLYMA10G39540.1 (Glycine max), 3'ss of exon 17
lower sequence: PP1S12_178V6.1 (Physcomitrella patens), 3'ss of exon 20
-------------------------------------------------------------------gtaattacctttc-ctgttctgtgcttctaatgaatgaaattaccttgcatgtttaaaagtaa-ttgaatttcaatcaaattga-----gcagGAGAGATGTCATTGATGAAGATGGATGGCTACATACTGGAGATATTGGGACGTGGTTACCTGGTGGTCGTCTCAAAATTATTGATAG
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gtagatttcatgttctcttcacgcgtctttggatatacgttgtcatacctaagtatcttcgatgatttgaattgtgaacctctgacagttgactccaacgcatattaatatcctactttttattacttaagctgatgttcttgtgaatttcttattgtagACGGGAAATTTTTGATGAAGAAGGATGGTTACATACTGGCGATATTGGGTGTTGGTTGCCAGGTGGTCGTCTCAAGATCATTGACAGMapped 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|10843907|gb|BF067252.1|BF067252EST: GTCAGGGGTCCCATTGTTTTTCGGGGCTATCACAAAGATGAAGCCCAGAC GAGAGATGTCATTGATGAAGATGGATGGCTACATACTGGAGATATTGGGAC
genomic: GTCAGGGGTCCCATTGTTTTTCGGGGCTATCACAAAGATGAAGCCCAGACgtaattacct ... aattgagcagGAGAGATGTCATTGATGAAGATGGATGGCTACATACTGGAGATATTGGGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatgaaattaccttgcatgtttaaaagtaattgaatttcaatcaaattgagcagGAGAGATGTCATTGATGAAGATGGATGGCTACATACTGGAGATATTGGGACGTGGTTACCTGGTGGTCGTCTCAAAATTATTGATAG
tttaaaagtaattgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattacctttcctgttctgtgcttctaatgaatgaaattaccttgcatgtttaaaagtaattgaatttcaatcaaattgagcagGAGAGATGTCATTGATGAAGATGGATGGCTACATACTGGAGATATTGGGACGTGGTTACCTGGTGGTCGTCTCAAAATTATTGATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG