Sequence
atgc intronic sequence ATGC exonic sequence...atcatattcaaagcaggactgatttacaaatttggtagaagctttggtgcactaccagtatatattgtgggcatctttatcttgctattctttcttgcagTCAGGAGTTTCTGAAGTAATTTATTTTGTGGAGAAGAGACTAAAAAAATTCAGATATTGCATATGTTGCCTCTCACAAGCTACTGTCATTGGCTGGTGTA
Basic information
species | Glycine max |
transcript | GLYMA17G13950.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G13950.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g55974.3 (Oryza sativa), 3'ss of exon 1
atcatattcaaagcaggactgatttacaaatttggtag-aagctttggtgcactaccagtatatattg--tgggcatct-ttatcttgctattctttcttgcagTCAGGAGTTTCTGAAGTAATTTATTTTGTGGAGAAGAGACTAAAAAAATTCAGATATTGCATATGTTGCCTCTCACAAGCTACTGTCATTGGCTGGTGTA-
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---acaaacacattgcattttattaataa-tttactagtaaaccgcgccttttcacttgaagaaattggttcaacactaactataatacttatctttcttgcagTCAGGTGTATCTGAAGTCATATATTTTGTAGAGAAAAGGATTGACAA-CTCTGATTATGTTTACGTAGCCTCGCACAAGTTGTTATCAATGGCTGGTGTAA
upper sequence: GLYMA17G13950.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G124091_T04 (Zea mays), 3'ss of exon 7
atcatattcaaagcaggactgatttacaaatttggtagaagctttggtgcactaccagtatatattgtgggcatctttat--cttgctattctttcttgcagTCAGGAGTTTCTGAAGTAATTTATTTTGTGGAGAAGAGACTAAAAAAATTCAGATATTGCATATGTTGCCTCTCACAAGCTACTGTCATTGGCTGGTGTA-
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-tttcaccgaaagcctaataaaaagaacagcaccaaattaacttcg-tgcaattctaatcattattgcttgagttctaacagcatgctgatatttcttacagTCAGGCGTATCTGAGGTCATATATTTCGTTGAAAAAAAGATTGACAA-CTCAGCTCACGTTTATGTTGCCTCTCACAAGCTATTGTCGATGGCTGGTGTCA
upper sequence: GLYMA17G13950.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G124091_T02 (Zea mays), 3'ss of exon 7
atcatattcaaagcaggactgatttacaaatttggtagaagctttggtgcactaccagtatatattgtgggcatctttat--cttgctattctttcttgcagTCAGGAGTTTCTGAAGTAATTTATTTTGTGGAGAAGAGACTAAAAAAATTCAGATATTGCATATGTTGCCTCTCACAAGCTACTGTCATTGGCTGGTGTA---
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-----accgaaagcctaataaaaagaacagcaccaaattaacttcg-tgcaattctaatcattattgcttgagttctaacagcatgctgatatttcttacagtcagGCGTATCTGAGGTCATATATTTCGTTGAAAAAAAGATTGACAA-CTCAGCTCACGTTTATGTTGCCTCTCACAAGCTATTGTCGATGGCTGGTGTCAAG
upper sequence: GLYMA17G13950.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G48540.1 (Arabidopsis thaliana), 3'ss of exon 7
----------------------------------------------------------------------------------------------atcatattcaaagcaggactgatttacaaatttggtagaagctttggtgcact---accagtata-tattgtgggcatct-ttatcttgctattctttcttgcagTCAGGAGTTTCTGAAGTAATTTATTTTGTGGAGAAGAGACTAAAAAAATTCAGATATTGCATATGTTGCCTCTCACAAGCTACTGTCATTGGCTGGTGTA-
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gtttgttctatataccattggcttgatttgtcaaatttggatccttaataagctactctagtaatcttttatggtcaatgtcttcagctaagcagtcatataaaaaccaaatgttctagttagtccaattaaccaatttgatgcaagtagatcatcacaatcatatggacttttgtcatttcggttttctttcttgcagTCTGGTGTTGCTGAGGTAATCTATTTTGTGGAAAAGAGACCAAATGA-CTCAGATGTTGCCTATGTAGCTTCTCACAAGCTCTTATCCATGGCAAACGTCA
upper sequence: GLYMA17G13950.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv17s0000g01370.t01 (Vitis vinifera), 3'ss of exon 7
atcatattcaaagcaggactgatttacaaatttggt--agaagctttggtgcactaccagtatatattgtgggcatctttatcttgc-tattctttcttgcagTCAGGAGTTTCTGAAGTAATTTATTTTGTGGAGAAGAGACTAAAAAAATTCAGATATTGCATATGTTGCCTCTCACAAGCTACTGTCATTGGCTGGTGTA-
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-aagtatttgactcctta--gattctcaatttttatttgtattccctgctttcttgattaattgctatatcaagatcaagatcttgcatctattttcttgcagTCAGGTGTCTCTGAAGTCATCTATTTTGTGGAGAAGAGGCTGAACAA-CTCACAAGTTGCATATATCGCCTCTCACAAACTTCTATCAATGGCTGGCGTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtgcactaccagtatatattgtgggcatctttatcttgctattctttcttgcagTCAGGAGTTTCTGAAGTAATTTATTTTGTGGAGAAGAGACTAAAAAAATTCAGATATTGCATATGTTGCCTCTCACAAGCTACTGTCATTGGCTGGTGTA
tctttatcttgctatt CT-rich tract
agtatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcatattcaaagcaggactgatttacaaatttggtagaagctttggtgcactaccagtatatattgtgggcatctttatcttgctattctttcttgcagTCAGGAGTTTCTGAAGTAATTTATTTTGTGGAGAAGAGACTAAAAAAATTCAGATATTGCATATGTTGCCTCTCACAAGCTACTGTCATTGGCTGGTGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - gcaggac
- - - - - - - - - - - - - - - - - - - - - -ttggtgc
- - - - - - - - - - - - - - - - - - - - - - - - - actacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgtggg