Sequence
atgc intronic sequence ATGC exonic sequence...ggataacgccaacaaagttaatttgtaatgtttgtggataatgattatattattatctccactggtgtgatgacatactatatatgcatcgcatttgcagGTTTGACAGAAAACTGAAGAACACATATGATCACCTTCTCTTTAGCAG
Basic information
species | Glycine max |
transcript | GLYMA18G00720.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g08570.1 (Oryza sativa), 3'ss of exon 10
-------ggataacgccaacaaagttaatttgtaatgtttgtggataatgattatattattatctccactggtgtgatgacatactatatatgcatcgcatttgcagGTTTGACAGAAAACTGAAGAACACATATGATCACCTTCTCTTTAGCAG
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gttggttggttgaattatttggttccaagtcggaa-attactcatcatcgagtttgtggttctccttatgactcatattagtatttctgttggtttgaacatttcagGTTTGATAGAAAACTGAAGAACACATATGACCACCTTCTTTTCAGCAG
upper sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G410515_T01 (Zea mays), 3'ss of exon 10
--------------------ggataacgccaacaaagttaatttgtaatgtttgtggataatgattatatt----attatctccactggtgtgatgacatactatatatgcatcgcat-ttgcagGTTTGACAGAAAACTGAAGAACACATATGATCACCTTCTCTTTAGCAG
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gttagttgattgaaatatttggttctgaactgtgaattgcctgattcccttgtctggattatgcttgttcgtcgagacatttctgaagctttgctgaaaatttctgt-tgttttgaatacctcagGTTTGACAGAAAACTGAACAACACATATGACCACCTTCTTTTCAGCAG
upper sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 5
lower sequence: AT4G14210.2 (Arabidopsis thaliana), 3'ss of exon 10
ggataacgccaacaaagtta--atttgtaatgtttgtggataatgattatattattatctccactggtgtgatgacatactatatatgcatcgcatttgcagGTTTGACAGAAAACTGAAGAACACATATGATCACCTTCTCTTTAGCAG
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-------gttagtgaaaccgttatctcccttgttttcttttggccattatgtgagaatcgagattacatgcaggtcttaactgctgtgaactaatattgcagGTTTGATCGAAAACTGAAGAACACATATGATCACCTACTCTTTAGCAG
upper sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 10
-ggataacgccaacaaagttaatttgtaatgtttgtggataatgattata-ttattatctccactggtgtgatgacatactatatatgcatcgcatttgcagGTTTGACAGAAAACTGAAGAACACATATGATCACCTTCTCTTTAGCAG
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ttagtctttgggtcaatgcatattt-taatatttgtcttagtcgttgatagttaatgtgtttgctcat-tggtcctgtaatgtaaattaattttgattgcagGTTTGACAGGAAACTGAAGAACACATACGATCATCTTCTTTTCAGCAGMapped 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|151400218|gb|EV270032.1|EV270032EST: CAGAGATTGGATAAATTAGTTGGCGTCCCAGTCATAAATGTTCACATATG GTTTGACAGAAAACTGAAGAACACATATGATCACCTTCTCTTTAGCAG
genomic: CAGAGATTGGATAAATTAGTTGGCGTCCCAGTCATAAATGTTCACATATGgtaagtgatg ... gcatttgcagGTTTGACAGAAAACTGAAGAACACATATGATCACCTTCTCTTTAGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatattattatctccactggtgtgatgacatactatatatgcatcgcatttgcagGTTTGACAGAAAACTGAAGAACACATATGATCACCTTCTCTTTAGCAG
atactatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggataacgccaacaaagttaatttgtaatgtttgtggataatgattatattattatctccactggtgtgatgacatactatatatgcatcgcatttgcagGTTTGACAGAAAACTGAAGAACACATATGATCACCTTCTCTTTAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC