Sequence
atgc intronic sequence ATGC exonic sequencegtaggtattattagtttgtattccagtcgttaaaatgtggttttttttgtttacatttgcatgtgtcttatcatgtttccttgaatgtggcttttccaatagGGACAACTGCACTTCACCTTGAACTGGAGGAGTGTGTTGCAAAATTTGTTGGGAAGCCAGCTGCTATAGTTTTTGGTATGGGCTATGTGACGAACTCTGC
Basic information
species | Glycine max |
transcript | GLYMA16G26210.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g70380.1 (Oryza sativa), 3'ss of exon 4
gtaggtattattagtttgtattccagtcgttaaaatgtggttttttttgtttacatttgcatgtgtcttatcatgtttccttgaatgtggcttttccaatagGGACAACTGCACTTCACCTTGAACTGGAGGAGTGTGTTGCAAAATTTGTTGGGAAGCCAGCTGCTATAGTTTTTGGTATGGGCTATGTGACGAACTCTGC
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gtaggcacttat-gttgctgctatagtttgt----tgccactgagttcttaaatgatttagtgtagtatataa-gcttacctgattcatacaatct---tagGCAACACTAAGCTGCATGTGGAACTTGAAGAGCTGGTTGCAAGATTTGTTGGCAAGCCTGCAGCTATTCTTTTTGGCATGGGTTATGTGACGAACTCTGC
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g70370.1 (Oryza sativa), 3'ss of exon 4
----gtaggtattattagtttgtattccagtcgttaaaatgtggttttttttgtttacatttgcatgtgtcttatcatgtttccttgaatgtggcttttccaatagGGACAACTGCACTTCACCTTGAACTGGAGGAGTGTGTTGCAAAATTTGTTGGGAAGCCAGCTGCTATAGTTTTTGGTATGGGCTATGTGACGAACTCTGC
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cgcaccaaagatcaaaagaaggtaacaacgctat--aaatttaaatcgtaattattgtaaaagcaagag-cttactgcagctaatttatttcaatgatgt---tagGCAACACTAAGCTGCATGTGGAACTTGAAGAACTGGTTGCAAGATTTGTTGGCAAGCCTGCAGCTATTCTCTTCGGCATGGGTTATGTGACGAACTCTGC
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G010202_T02 (Zea mays), 3'ss of exon 4
gtaggtattattagtttgtattcca-gtcgt-taaaatgtggttttttttgtttacatttgcatgtgtcttatcatgtttccttgaatgtggcttttccaat---agGGACAACTGCACTTCACCTTGAACTGGAGGAGTGTGTTGCAAAATTTGTTGGGAAGCCAGCTGCTATAGTTTTTGGTATGGGCTATGTGACGAACTCTGC
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gtcggtgcttatgtttatcaaactgtgtcacgttttacgtaggttgagtggtttcagta---atatatcaaaattcgttagactgattgagttttatctgatattagGCAATACTAAGTTGCACACAGAGCTCGAAGAGCTTGTTGCAAGATTTGTTGGTAAGCCTGCAGCTATTCTTTTTGGCATGGGCTATGTGACAAACTCTGC
upper sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0068g01300.t01 (Vitis vinifera), 3'ss of exon 4
gtaggtattattagtttgtattccagtcgttaaaatgtggttttttttgtttacatttgcatgtgtcttatcatgtttccttgaatgtggcttttccaatagGGACAACTGCACTTCACCTTGAACTGGAGGAGTGTGTTGCAAAATTTGTTGGGAAGCCAGCTGCTATAGTTTTTGGTATGGGCTATGTGACGAACTCTGC
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-------------gtatgtgtattattt-ttaaaataca------tatgcttagtt----attcgtctatttaaatttctactgacacatttcatctatcagGCACAATAATGATGCATAATGAATTGGAAAAGTATGTCGCAAATTTTGTTGGAAAACCAGCTGCTATAGTGTTTGGAATGGGCTACGTGACAAACTCTGCMapped 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|18730538|gb|BM525934.1|BM525934EST: TACGTTGAAGAAGTATTCTCCTAGCACTTGCAGTACCCGTGTGGATGGGG GGACGACTGCACTTCACCTTGAATTGGAGGAGTGTGTTGCAAAATTTGTTG
genomic: TACGTTGAAGAAGTATTCTCCTAGCACTTGCAGTACCCGTGTGGATGGGGgtaggtatta ... tttccaatagGGACAACTGCACTTCACCTTGAACTGGAGGAGTGTGTTGCAAAATTTGTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttacatttgcatgtgtcttatcatgtttccttgaatgtggcttttccaatagGGACAACTGCACTTCACCTTGAACTGGAGGAGTGTGTTGCAAAATTTGTTGGGAAGCCAGCTGCTATAGTTTTTGGTATGGGCTATGTGACGAACTCTGC
cttttcc CT-rich tract
ttatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtattattagtttgtattccagtcgttaaaatgtggttttttttgtttacatttgcatgtgtcttatcatgtttccttgaatgtggcttttccaatagGGACAACTGCACTTCACCTTGAACTGGAGGAGTGTGTTGCAAAATTTGTTGGGAAGCCAGCTGCTATAGTTTTTGGTATGGGCTATGTGACGAACTCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT