Sequence
atgc intronic sequence ATGC exonic sequenceGGACATCAAAGGAGCAAATATACTGGTAGATACTAATGGCCGGGTTAAGTTGGCAGACTTTGGCATGGCAAAGCATgtaagcttggagataaaagtttgcttttatgctaattgtaggatatgaaaattggtttctgttgcttagtgaaattatgaataaaggtttgaaaataact...
Basic information
species | Glycine max |
transcript | GLYMA09G24970.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G24970.2 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os04g47240.2 (Oryza sativa), 5'ss of exon 7
GGACATCAAAGGAGCAAATATACTGGTAGATACTAATGGCCGGGTTAAGTTGGCAGACTTTGGCATGGCAAAGCATgtaagcttggagataaaagtttgctttt--atgctaattgtaggatatgaaaattggtttctgttgcttagtgaaattatgaataaaggtttgaaaataact
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GGATATTAAAGGTGCAAATATACTAGTAGATCCTAGTGGTCGTGTTAAGCTTGCAGATTTTGGAATGGCAAAACATgtaagtttttctgcccactttaattttttgaaaatgacttttgtcaattgaactttattttccgtg-tcattccatttctgcatctatgcctcatatcata-
upper sequence: GLYMA09G24970.2 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g44642.1 (Oryza sativa), 5'ss of exon 7
GGACATCAAAGGAGCAAATATACTGGTAGATACTAATGGCCGGGTTAAGTTGGCAGACTTTGGCATGGCAAAGCATgtaagcttggagataaaagtttgcttttatgctaattgtaggatatgaaaattggtttctgttgcttagtgaaattatgaataaaggtttgaaaataact-----------------
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GGACATTAAAGGTGCAAACATACTGGTAGATCCTAATGGTCGTGTAAAGCTTGCTGACTTCGGAATGGCAAAACATgtaaattc-----------tctgttt-----caaattgtaaaaaa-aaaaatctttctcatttgtcaggaataactaaaatttaaagcaaaagcattattagatgtaattccttgta
upper sequence: GLYMA09G24970.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G093316_T01 (Zea mays), 5'ss of exon 7
GGACATCAAAGGAGCAAATATACTGGTAGATACTAATGGCCGGGTTAAGTTGGCAGACTTTGGCATGGCAAAGCATgtaagcttggagataaaagtttgcttttatgctaattgtaggatatgaaaattggtttctgttgcttagtgaaattatgaataaaggtttgaaaataact-----
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AGACATCAAAGGTGCAAACATATTGGTAGACCCTAATGGCCGTGTAAAGCTTGCTGACTTTGGGATGGCAAAACATgtaagttttc---tgcatgttttcttat-tcctatttgtagaa-agaaactcaaatgtcaacaatagtattttatcttcaccgaggaaatgcagcgcgttctttt
upper sequence: GLYMA09G24970.2 (Glycine max), 5'ss of exon 6
lower sequence: AC209208.3_FGT001 (Zea mays), 5'ss of exon 6
GGACATCAAAGGAGCAAATATACTGGTAGATACTAATGGCCGGGTTAAGTTGGCAGACTTTGGCATGGCAAAGCATgtaagcttggagataaaagtttgcttttatgctaattgtaggatatgaaaattggtttctgttgct-tagtgaaattatgaataaaggtttgaaaataact----
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AGACATCAAAGGCGCAAACATATTGGTAGACCCTAATGGCCGCGTGAAGCTCGCTGACTTTGGGATGGCAAAACATgtaggttttctgctcgtcttttattcctat-----ttgtagaaactagaaagcaactcagatgtcaacaatagtattttgtctccaccgaggaaatgtgttgctc
upper sequence: GLYMA09G24970.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G175504_T01 (Zea mays), 5'ss of exon 6
GGACATCAAAGGAGCAAATATACTGGTAGATACTAATGGCCGGGTTAAGTTGGCAGACTTTGGCATGGCAAAGCATgtaagcttggaga----taaaagtttgcttttatgctaattgtaggatatgaaaattggtttctgttgcttagtgaaattatgaataaaggtttgaaaataact
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GGACATCAAAGGTGCCAACATACTAGTAAATCCAAGTGGCCGTGTTAAGCTTGCAGACTTTGGAATGGCAAAACATgtaagtcttgagagtctcgaagccattctacttggttaaaagtagttaaaatgggccgatgttttctacatattgaaatatggatctgctatccttacat----
upper sequence: GLYMA09G24970.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv16s0050g00770.t01 (Vitis vinifera), 5'ss of exon 6
GGACATCAAAGGAGCAAATATACTGGTAGATACTAATGGCCGGGTTAAGTTGGCAGACTTTGGCATGGCAAAGCATgtaagcttggagataaaagtttgcttttatgctaattgtaggatatgaaaattggtttctgttgcttagtgaaatta-tgaataaa--ggtttgaaaataact
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GGATATTAAAGGGGCAAATATACTTGTAGACCCAAGTGGTCGAGTCAAGTTAGCAGATTTTGGAATGGCAAAGCATgtaagtttgtaggcatatactttttatttgaaatgtcctcaaacaaaacaagcatcaagcaatgggttttgaagttggtaaatggaatgattgttaaatg---Mapped 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|5753494|gb|AI960781.1|AI960781EST: TAGATACTAATGGCCGGGTTAAGTTGGCAGACTTTGGCATGGCAAAGCAT ATAACAGGGCAATC
genomic: TAGATACTAATGGCCGGGTTAAGTTGGCAGACTTTGGCATGGCAAAGCATgtaagcttgg ... tattttgcagATAACAGGGCAATC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGACATCAAAGGAGCAAATATACTGGTAGATACTAATGGCCGGGTTAAGTTGGCAGACTTTGGCATGGCAAAGCATgtaagcttggagataaaagtttgcttttatgctaattgtaggatatgaaaattggtttctgttgcttagtgaaattatgaataaaggtttgaaaataact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG