Sequence
atgc intronic sequence ATGC exonic sequencegtttgcttcttttatcctttgggatgtatggatatagaggtccatggaacctttcaaaaggtctttgtacctacatttttttcagGACTTAAAAAATGCGAAGTCAATTGTTGACTGGATTGCATGGGCTGAGCCACAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTA
Basic information
species | Glycine max |
transcript | GLYMA14G20110.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G20110.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os06g48770.2 (Oryza sativa), 3'ss of exon 5
gtttgcttcttttatcctttgggatgtatggatatagaggtccatggaacctttcaaaaggtctttgtacctacatttttttcagGACTTAAAAAATGCGAAGTCAATTGTTGACTGGATTGCATGGGCTGAGCCACAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTA
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gtttgcctctatt--ctgaaaaaacggacttatgtaaaa---tgtgcaggattgctatatcattttct-----taatgttgtcagGATTTGAAGAATGCAAAATCATTAGTTGAATGGATTGCATGGGCAGAGCCTCAATATAATTTTAACCCGATGATAGATGAATGGTGCAAGGAGGCACCAA
upper sequence: GLYMA14G20110.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G140917_T01 (Zea mays), 3'ss of exon 6
gtttgcttcttttatcctttgggatgtatggatatagaggtccatggaacctttcaaaaggtctttgtacctacatttttttcagGACTTAAAAAATGCGAAGTCAATTGTTGACTGGATTGCATGGGCTGAGCCACAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTA
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gttta--tctctaacctgcaagtatgc-tgtctagcacagt---tggagtccattaca---tttttctattggtggc-----cagGATCTGAAGAATGCAAAATCATTGATTGAATGGATAGCGTGGGCAGAGCCTCAGTATGATTTTAATCCGATGATTGATGAATGGTGCAAGGAGGCTCCAA
upper sequence: GLYMA14G20110.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G24810.2 (Arabidopsis thaliana), 3'ss of exon 5
---------gtttgcttcttttatcctttgggatgtatggatatagaggt---ccatggaac--------------ctttcaaaaggtctttgtacctacatttttttcagGACTTAAAAAATGCGAAGTCAATTGTTGACTGGATTGCATGGGCTGAGCCACAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTA
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gtctggtcttttttcgttttgaagcatttgatatgaacagtaagagctattagctattgtatgactgttcacacttctttcaacttgtcttctcttttcatttcttaacagGACTTAAAGAATGCAAAGTCCATTGTTGACTGGATTGCGTGGGCGGAACCACAGTACAATTTTAATCCCATGATAGATGAATGGTGCAAGGAAGCTCCAA
upper sequence: GLYMA14G20110.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0008g02740.t01 (Vitis vinifera), 3'ss of exon 4
---------------------------------gtttgcttcttttatcctttgggat-gtatggatatagag-gtcc----atggaacctttcaaaaggtctttgtacctac-atttttttcagGACTTAAAAAATGCGAAGTCAATTGTTGACTGGATTGCATGGGCTGAGCCACAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTA
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gttttgcatgcttttggattttaagatgattgtgataggaagtaatatctgttgtcattatatggttgttgggcatcctatcaaaaaaaaaattatatggttgttgggcttactattggttgcagGACTTAAAGAATGCAAAGTCAATAGCTGACTGGATAGCATGGGCAGAACCACAATATGACTTCAACCCTATGATTGATGAATGGTGCAGAGAAGCACCTAMapped 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|213608686|gb|DB968973.1|DB968973EST: AAGTGGTAGTTAAAGTTCAACATGATGGTATCAAGACAATTATACTGGAG GACTTAAAAAATGCGAAGTCAATTGTTGACTGGATTGCATGGGCTGAGCCA
genomic: AAGTGGTAGTTAAAGTTCAACATGATGGTATCAAGACAATTATACTGGAGgtttgcttct ... tttttttcagGACTTAAAAAATGCGAAGTCAATTGTTGACTGGATTGCATGGGCTGAGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatatagaggtccatggaacctttcaaaaggtctttgtacctacatttttttcagGACTTAAAAAATGCGAAGTCAATTGTTGACTGGATTGCATGGGCTGAGCCACAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTA
cctacatttttttc CT-rich tract
tacattttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgcttcttttatcctttgggatgtatggatatagaggtccatggaacctttcaaaaggtctttgtacctacatttttttcagGACTTAAAAAATGCGAAGTCAATTGTTGACTGGATTGCATGGGCTGAGCCACAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC