Sequence
atgc intronic sequence ATGC exonic sequence...ctctagaatcttacagcacagggataaggatttttgcagttttctccatttttaaaccttacacttaattccttatgatgttttgttttgttgctcgtagATGTGAAAGACATAAAATGTGTGATCAATTATGATTTTCCATCAAGCCTGGAAGATTATGTCCACAGAATTGGTCGAACTGGTCGTGCAGGGGCTAAAGG
Basic information
species | Glycine max |
transcript | GLYMA05G02590.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G02590.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g68320.4 (Oryza sativa), 3'ss of exon 8
ctctagaatcttacagcacagggataaggattt---ttgcagttttctccatttttaaaccttacacttaattcctta--tgatgttttgttttgttgctcgtagATGTGAAAGACATAAAATGTGTGATCAATTATGATTTTCCATCAAGCCTGGAAGATTATGTCCACAGAATTGGTCGAACTGGTCGTGCAGGGGCTAAAGG
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-----gagatcgacaatgttgatatcccagtttggtctgctgtggtcttcagggcaaaagtattatcttgattacatactcatcattttcttgttatttttgcagATGTCAAGGATATTAAGTGTGTGATAAATTTTGATTTTCCAACAACTCTTGAAGATTATATTCACAGAATAGGTCGAACTGGCCGCGCTGGTGCTAGTGG
upper sequence: GLYMA05G02590.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G362850_T01 (Zea mays), 3'ss of exon 9
ctctagaatcttacagcacagg-gataaggatttttgcagttt--tctccatttttaaaccttacacttaattcctta-tgatgttttgttttgttgctcgtagATGTGAAAGACATAAAATGTGTGATCAATTATGATTTTCCATCAAGCCTGGAAGATTATGTCCACAGAATTGGTCGAACTGGTCGTGCAGGGGCTAAAGG
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---tggggatcgacaatgttgatgttccagcgtggtccagcatggtattcaggacaacacatcaattttgattaagtactgataatatttgttgat-tttgcagATGTGAAGGACATAAAGTGTGTGATAAATTATGATTTTCCAACAACTCTTGAAGATTATATTCACAGGATAGGTCGAACTGGCCGTGCTGGTGCTAGCGGMapped 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|208158637|gb|GD956472.1|GD956472EST: TGGCAGAAGTCCAATAATGACTGCCACTGATGTTGCTGCACGGGGTCTTG ATGTGAAAGACATAAAATGTGTGATCAATTATGATT
genomic: TGGCAGAAGTCCAATAATGACTGCCACTGATGTTGCTGCACGGGGTCTTGgtaggatcat ... ttgctcgtagATGTGAAAGACATAAAATGTGTGATCAATTATGATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccatttttaaaccttacacttaattccttatgatgttttgttttgttgctcgtagATGTGAAAGACATAAAATGTGTGATCAATTATGATTTTCCATCAAGCCTGGAAGATTATGTCCACAGAATTGGTCGAACTGGTCGTGCAGGGGCTAAAGG
ttttgtt CT-rich tract
ttttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctctagaatcttacagcacagggataaggatttttgcagttttctccatttttaaaccttacacttaattccttatgatgttttgttttgttgctcgtagATGTGAAAGACATAAAATGTGTGATCAATTATGATTTTCCATCAAGCCTGGAAGATTATGTCCACAGAATTGGTCGAACTGGTCGTGCAGGGGCTAAAGG
- - - - - - -cagcaca
- - - - - - - - - - - - - - - -ttttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttttg