Sequence
atgc intronic sequence ATGC exonic sequence...aaacaaagcttaaatattcaggggttattttgataggttgggacttaggttacttatcttgctttaaatgattttataagttatttctgttggcacccagGGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTTATACGCTGCATTAAGCCCAATAACCTCCAATCACCTGGATCATATGAGC
Basic information
species | Glycine max |
transcript | GLYMA10G43230.1 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 16
lower sequence: LOC_Os10g34710.1 (Oryza sativa), 3'ss of exon 17
aaacaaagcttaaatattcaggggttattttgataggttgggacttaggttacttatcttgctttaaatgattttataagttatttctgttggcacccagGGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTTATACGCTGCATTAAGCCCAATAACCTCCAATCACCTGGATCATATGAGC
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-gtaattttttttggccccaaataacaatttgctagatcatgaatgaagtagattagttttattgacagtgtctgtccaattttttttaa--------agGGACAATTGTTCCAACTTATGCAAAGACTCGAAAGTACAACACCACACTTTATACGTTGTATTAAGCCAAACAATTTGCAACTCCCTGCAATTTATGAAC
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 16
lower sequence: AT3G19960.1 (Arabidopsis thaliana), 3'ss of exon 18
-aaacaaagcttaa-atattcaggggttattttgataggttgggacttaggttact----tatcttgctttaaatgattttataagttatttctgttggcacccagGGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTTATACGCTGCATTAAGCCCAATAACCTCCAATCACCTGGATCATATGAGC
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ttaccaaattttgccatgcttacgctatgaaagaaaaagccaatatatcatcctctatgatatttgattattaatgaccttacctgg-atttttttt-----ccagAGTCAACTCTTCCAATTGATGCAACGTTTAGGAAACACTACCCCACATTTCATTCGCTGTATCAAGCCAAATAACATCCAGTCTCCCGGGGTGTATGAGC
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 16
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 3'ss of exon 18
------------------------------------------------------------------aaacaaagcttaaatattcaggggttattttgataggttgggacttaggttacttat-cttgctttaaatg--------attttataagtt---atttctgttggcacc-------------cagGGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTTATACGCTGCATTAAGCCCAATAACCTCCAATCACCTGGATCATATGAGC
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gttgggtgatttccttaaacacagcttgcttctatttctgctcttaaaatttgttgagggtttactcatcacagctttcatctcatcaacatatgttgtccatttcttgtccaaaaggcttctgcttactttagaaggaaacgtcatcttataatatttgattagtgacgatgccgggatatttttttcagGGTCAACTTTTCCAATTGATGCAACGTCTAGGGAACACTACCCCACATTTTATTCGCTGCATAAAGCCAAACAATGTTCAGTCTGCCGGGTTGTATGAGC
upper sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 17
------aaacaaagcttaaatattcaggggttattttgataggttgggacttaggttacttatcttgctttaaatgattttataagttatttctgttggcacccagGGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTTATACGCTGCATTAAGCCCAATAACCTCCAATCACCTGGATCATATGAGC
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gtttgtaaattagagttatactatcaaaaaatatctcagtaatt---gagttggtttctgtgccttgatatgt-tg--cttactcatttcttgtgttggtttttagGGTCAACTGTTCCAACTGATGCAGCGTCTTGAGACCACAACACCACATTTCATTCGTTGCATTAAGCCCAACAATTTTCAGTCTCCTGGAAACTATGACCMapped 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|23055983|gb|BU577699.1|BU577699EST: AGTCAGGTGGGGCAGATTCCCAAAAGCTAAGCGTTGCCACAAAATTCAAG GGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTT
genomic: AGTCAGGTGGGGCAGATTCCCAAAAGCTAAGCGTTGCCACAAAATTCAAGgtacataacc ... tggcacccagGGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTT
EST:
gi|18039602|gb|BM307896.1|BM307896EST: AGTCAGGTGGGGCAGATTCCCAAAAGCTAAGCGTTGCCACTAAATTCAAG GGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTT
genomic: AGTCAGGTGGGGCAGATTCCCAAAAGCTAAGCGTTGCCACAAAATTCAAGgtacataacc ... tggcacccagGGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taggttacttatcttgctttaaatgattttataagttatttctgttggcacccagGGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTTATACGCTGCATTAAGCCCAATAACCTCCAATCACCTGGATCATATGAGC
tttctgtt CT-rich tract
tttaaatgattttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaacaaagcttaaatattcaggggttattttgataggttgggacttaggttacttatcttgctttaaatgattttataagttatttctgttggcacccagGGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTTATACGCTGCATTAAGCCCAATAACCTCCAATCACCTGGATCATATGAGC
aaacaaa
- - - - - - - - - - - - - - - - - -ggttggg