Sequence
atgc intronic sequence ATGC exonic sequence...atgatttttgttttttcatcatgttgcaagacatcatgtcatatcaagtcaatatcaagacattatgcatatggaatttaaatcatacatccttttacagGCCCGTGAGTTTGCAAATGAACTTCGTGCTAGTACTAAAGCATCTAGAAATCCAACTGTTTGGCTTGAAGGTTCCACAGGTTCTGGTCAGAATGTAAATG
Basic information
species | Glycine max |
transcript | GLYMA17G36540.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G36540.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os03g42750.1 (Oryza sativa), 3'ss of exon 13
atgatt-tttgttttttcatcatgttgcaagacatcatgtcatatcaa---gtcaatatcaagacattatgcatatggaatttaaatcatacatccttttacagGCCCGTGAGTTTGCAAATGAACTTCGTGCTAGTACTAAAGCATCTAGAAATCCAACTGTTTGGCTTGAAGGTTCCACAGGTTCTGGTCAGAATGTAAATG
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atgaatgtacacacactctatctggtccttgttaattgatttttttaacttgtccattccaaca-gctaaacatgtaatcttt---ccccataatttgatttagGCACGTGAATTCGCCAATGAACTTCGAGCAAGCACGAAAGCACCTAAAAATCCAGCTGTTTGGCTTGAAGGTTCTAATAGTGGCGGTCAGAATGGCAGTA
upper sequence: GLYMA17G36540.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G099056_T01 (Zea mays), 3'ss of exon 13
atgatttttgtttttt----catcatgttgcaagacatcatgtcatatcaagtcaatatcaagacattatgcatatggaatttaaatcatacatccttttacagGCCCGTGAGTTTGCAAATGAACTTCGTGCTAGTACTAAAGCATCTAGAAATCCAACTGTTTGGCTTGAAGGTTCCACAGGTTCTGGTCAGAATGTAAATG
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--gtcctctgcttaatggacagttactttacaatccatt-tgccttctttatttgattttaaaggattcacaattttgaagtttactgtttgatttggtt-cagGCACGCGAATTTGCCAATGAACTTCGTGCAAGTACAAAAGCACCGAAGAATCCTGCTGTTTGGCTTGAAGGTTCTGGCGGCTCTGGTCATAATGGAAGCA
upper sequence: GLYMA17G36540.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv18s0001g11700.t01 (Vitis vinifera), 3'ss of exon 13
atgatttttgttttttcatcatgttgcaagacatcatgtca---tatcaagtcaatat--caagacattatgcatatggaatttaaatcatacatccttttacagGCCCGTGAGTTTGCAAATGAACTTCGTGCTAGTACTAAAGCATCTAGAAATCCAACTGTTTGGCTTGAAGGTTCCACAGGTTCTGGTCAGAATGTAAATG
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--acttgataggtccttaattaattactagatcttgtgccagtttagaaattcagtatgtttgaatatgtggtgtctgaaagttcttttata---tcatctatagGCTCGTGAGTTTGCAAATGAGCTTCGTGCTAGTACCAAAGCATCAAGAAATCCAACTGTCTGGCTTGAAGCTTCTACAGGCTCTGGTCAAAATATGAACAMapped 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|207719933|gb|GD704420.1|GD704420EST: CATTGAGGAAAGCTTATTGCAGTTCTCTAAACTTGCTTCTTCGCAGAGAG GCCCGTGAGTTTGCAAATGAACTTCGTGCTAGTACTAAAGCATCTAGAAAT
genomic: CATTGAGGAAAGCTTATTGCAGTTCTCTAAACTTGCTTCTTCGCAGAGAGgtgtgttcac ... ccttttacagGCCCGTGAGTTTGCAAATGAACTTCGTGCTAGTACTAAAGCATCTAGAAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtcaatatcaagacattatgcatatggaatttaaatcatacatccttttacagGCCCGTGAGTTTGCAAATGAACTTCGTGCTAGTACTAAAGCATCTAGAAATCCAACTGTTTGGCTTGAAGGTTCCACAGGTTCTGGTCAGAATGTAAATG
catcctttt CT-rich tract
aatttaaatcatacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgatttttgttttttcatcatgttgcaagacatcatgtcatatcaagtcaatatcaagacattatgcatatggaatttaaatcatacatccttttacagGCCCGTGAGTTTGCAAATGAACTTCGTGCTAGTACTAAAGCATCTAGAAATCCAACTGTTTGGCTTGAAGGTTCCACAGGTTCTGGTCAGAATGTAAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - catcatg
- - - - - - - - - - - - tgcaaga
- - - - - - - - - - - - - caagaca
- - - - - - - - - - - - - - - - -tcatgtc
- - - - - - - - - - - - - - - - - - - - - - caagtca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catacat