Sequence
atgc intronic sequence ATGC exonic sequence...aacttagttgcattcttatttttagttttgaatgtactagctagtagtaattatcctcacgactaacttaaacgtatatgtggttatgtttgaccggtagGTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTAGATGATATGATCGACACTGCTG
Basic information
species | Glycine max |
transcript | GLYMA17G16400.3 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G16400.3 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G038791_T01 (Zea mays), 3'ss of exon 5
---aacttagttgcattcttatttttagttttgaatgtactagctagtagtaattatcctcacgactaacttaaacgtatatgtggttatgtttgaccggta--gGTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTAGATGATATGATCGACACTGCTG
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acagctttagctgaatacaaaccatctgc---agctatgctgaatacatgt--ttatcttaattttcaggctgcatgttcatcttgtcatgtgcatttattacagGTGATGAATCTTATTGGAGACGTGAGAGGAAAAGTGGCTGTTATGATGGATGATATGATCGACACAGCAG
upper sequence: GLYMA17G16400.3 (Glycine max), 3'ss of exon 5
lower sequence: AT2G35390.3 (Arabidopsis thaliana), 3'ss of exon 4
aacttagttgcattcttatttttagttttgaatgtactagctagtagtaattatcctcacgactaacttaaacgtatatgtggttatgtttgaccggtagGTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTAGATGATATGATCGACACTGCTG
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-------gtatccctttctttcagagtcagagtttgctcaccaacaccgcttgcttcccc-------ttaagttcacatttg-ttatactttcctttcagGTCATGAACCTAATTGGTGATGTAAGAGGGAAGGTGGCAATAATGGTGGATGATATGATTGATACTGCTG
upper sequence: GLYMA17G16400.3 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0012g00530.t01 (Vitis vinifera), 3'ss of exon 5
aacttagttgcattcttatttttagtt-ttgaatgtactagctagtagtaattatcct-cacgactaacttaaacgtatatgtggttat-gtttgaccggtagGTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTAGATGATATGATCGACACTGCTG
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agctttgaag-atatggatggaaagatgttgaattcttttctttgt--tacttatgagatgtcattcctggagtcaagtctgtatttattgtttaccttacagGTGATGAATCTGATTGGTGATGTCAAAGGAAAAGTTGCAGTCATGGTGGATGACATGATTGATACTGCTG
upper sequence: GLYMA17G16400.3 (Glycine max), 3'ss of exon 5
lower sequence: PP1S403_8V6.1 (Physcomitrella patens), 3'ss of exon 4
aacttagttgcattcttatttttagttttgaatgtactagctagtagtaattatcctcacgactaacttaaacgtatatgtggttatgtt---tgaccggtagGTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTAGATGATATGATCGACACTGCTG
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--tcaatttgaaaatgtgttctttacagcggattgaccctatgatgg-aattaaaagttggtttggattgccgttactgaagttgatgttgaacgacgtgcagGTTATGAACCTCATCGGAGATGTGAAAGGAAAAGTGGCTGTTATGGTTGACGACATGATAGACACTGCTG
upper sequence: GLYMA17G16400.3 (Glycine max), 3'ss of exon 5
lower sequence: PP1S123_105V6.1 (Physcomitrella patens), 3'ss of exon 5
----------------------------------------------------------------------------------------------------aacttagttgcattct-tatt-tttagttttgaatgtactagctagtagtaattatcctcacgactaact---taaacgtatatgtggtt-atgtttgaccggtagGTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTAGATGATATGATCGACACTGCTG
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gtgaattggcatcagcatccgcaccatctctaatgcactttgttttgtggatacaccctgcatgaccacttactcttccatggtgtaatttcctactgtatagttgatgtcatttggcatcatttagagctaagtatgtttcttgacggaaa--aatcttgtatcaaactgaccaaagaaatatttgattcatgttt----ggcagGTGATGAACCTGATCGGAGATGTCAAGGGAAAGGTAGCAGTTATGCTTGATGATATGATTGACACTGCTGMapped 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|214009165|gb|DB988558.1|DB988558EST: CACCTTTAGCTATTGTAGACAAGAGGCGCCATGGACACAATGTTGCTGAG GTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTAGAT
genomic: CACCTTTAGCTATTGTAGACAAGAGGCGCCATGGACACAATGTTGCTGAGgtaataacgg ... tgaccggtagGTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTAGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtaattatcctcacgactaacttaaacgtatatgtggttatgtttgaccggtagGTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTAGATGATATGATCGACACTGCTG
taacttaaa 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
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aacttagttgcattcttatttttagttttgaatgtactagctagtagtaattatcctcacgactaacttaaacgtatatgtggttatgtttgaccggtagGTGATGAACCTGATTGGTGATGTAAAAGGAAAAGTTGCTGTAATGGTAGATGATATGATCGACACTGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA