Sequence
atgc intronic sequence ATGC exonic sequencegttagaacggtttgtcttattttgttttgcctgaagttcacttatccattgaaaagtaatgggaagttgttcctggacatttcagGCTGTGTACCATATGCCAACAACTGAGAATGATATGCCCACTGGTAGCATCCCTTTGGCCTTGCAAAGTTTATTCTACAAGCTTCAATACAGTGACACCA
Basic information
species | Glycine max |
transcript | GLYMA13G16170.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G16170.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g56490.1 (Oryza sativa), 3'ss of exon 5
gttagaacggtttgtcttattttgt--tttgcctgaagttcacttatccattgaaaagtaatgggaagttgttcctggacatttcagGCTGTGTACCATATGCCAACAACTGAGAATGATATGCCCACTGGTAGCATCCCTTTGGCCTTGCAAAGTTTATTCTACAAGCTTCAATACAGTGACACCA
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---------gtgaggctaaatttgtaaattctcttaaatgaatcctatgatgcgaggctgatacagagaat------gatattttagGCTGTATACCATATGCCAACTACAGAGAATGATACACCTTGCGGGAGCATCCCTTTGGCTTTGCAAAGTCTTTTCTGCAAACTTCAGCATAGTGACAATA
upper sequence: GLYMA13G16170.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 3'ss of exon 1
--gttagaacggtttgtcttattttgttttgcctgaagttcacttatccattgaaaagtaatgggaagttgttcctggacatttcagGCTGTGTACCATATGCCAACAACTGAGAATGATATGCCCACTGGTAGCATCCCTTTGGCCTTGCAAAGTTTATTCTACAAGCTTCAATACAGTGACACCA
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gtgtgagatca-tgcatcataattcagagcattctagactattgtttcca----gaactaattgactaacttcattattttacccagGCTGTGTATCATATGCCAACCACCGAAAATGATATGCCATCTGGGAGTATTCCGTTGGCATTGCAGAGCCTTTTCTACAAGCTCCAGTATAGTGACAATA
upper sequence: GLYMA13G16170.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 3'ss of exon 5
gttagaacggtttgtcttattttgttttgcctgaagt-tcacttatcc--attgaaaagtaatgggaagttgttcctggacatttcagGCTGTGTACCATATGCCAACAACTGAGAATGATATGCCCACTGGTAGCATCCCTTTGGCCTTGCAAAGTTTATTCTACAAGCTTCAATACAGTGACACCA
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gtctgagatcattactttttcctagtctacatgatttgttaagtacctgaacttaagactaattgaaattt---------catcttagGCTGTATATCATATGCCAACTACTGAGAATGACATGCCATCTGGGAGTATTCCTTTAGCCCTGCAGAGCCTTTTTTACAAGCTCCAATACAGCGACAATA
upper sequence: GLYMA13G16170.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 5
gttagaacggtttgtcttattttgttttgcctgaagttcacttatccattgaaaagtaatgggaagttgttcctggacattt-cagGCTGTGTACCATATGCCAACAACTGAGAATGATATGCCCACTGGTAGCATCCCTTTGGCCTTGCAAAGTTTATTCTACAAGCTTCAATACAGTGACACCA
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gtgaaatcaatca---ttgttctgttctacatgt--ttctctaagcacctgaattttga--accatttattgaaatgttttcatagGCTGTATATCATATGCCAACAACTGAGAATGACATGCCATCTGGGAGTATCCCTTTAGCCCTGCAGAGCCTGTTTTACAAGCTACAGTATAGTGACAACA
upper sequence: GLYMA13G16170.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 5
-------gttagaacggtttgtcttattttgttt-tgcctgaagttcactt--atccattgaaaagtaatgggaagttgtt---cctggacatttcagGCTGTGTACCATATGCCAACAACTGAGAATGATATGCCCACTGGTAGCATCCCTTTGGCCTTGCAAAGTTTATTCTACAAGCTTCAATACAGTGACACCA
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gttaataaccattgttcttttttctacattgtctctgttacatgtcttcttgaagatatttgaaaagggtaacaattttttggatcatgttttttcagGCTGTGTACCATATGCCAACGACTGAGAATGATATGCCATCTGGAAGCATTCCTTTGGCTTTGCAGAGTTTATTCTATAAGCTTCAATACAGTGACAGCAMapped 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|254314169|gb|GR831798.1|GR831798EST: ATATGAATTCTCTACTCCAAACCTTGTATCATATTCCTTATTTTAGAAAG GCTGTGTACCATATGCCAACAACTGAGAATGATATGCCCACTGGTAGCATC
genomic: ATATGAATTCTCTACTCCAAACCTTGTATCATATTCCTTATTTTAGAAAGgttagaacgg ... gacatttcagGCTGTGTACCATATGCCAACAACTGAGAATGATATGCCCACTGGTAGCATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgaagttcacttatccattgaaaagtaatgggaagttgttcctggacatttcagGCTGTGTACCATATGCCAACAACTGAGAATGATATGCCCACTGGTAGCATCCCTTTGGCCTTGCAAAGTTTATTCTACAAGCTTCAATACAGTGACACCA
aaaagtaat 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagaacggtttgtcttattttgttttgcctgaagttcacttatccattgaaaagtaatgggaagttgttcctggacatttcagGCTGTGTACCATATGCCAACAACTGAGAATGATATGCCCACTGGTAGCATCCCTTTGGCCTTGCAAAGTTTATTCTACAAGCTTCAATACAGTGACACCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT