Sequence
atgc intronic sequence ATGC exonic sequenceGCCTGAGCTTGGTTTTGCTCCTGAGGATTCTGATAGGCTGGTCGCGTCTTTCAGTGGAGGCTGGCAGATGAGGATGTGTCTCGGCAAGATTCTACTTCAGgtgtgttaatgcttcatgttggattgtcctgaatcatcttgaaatatcagctaatgttatttcaagtaaatgttcacatgtttgttttcatgttgaggaa...
Basic information
species | Glycine max |
transcript | GLYMA04G39670.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G39670.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os11g39020.1 (Oryza sativa), 5'ss of exon 1
GCCTGAGCTTGGTTTTGCTCCTGAGGATTCTGATAGGCTGGTCGCGTCTTTCAGTGGAGGCTGGCAGATGAGGATGTGTCTCGGCAAGATTCTACTTCAGgtgtg----------------ttaatgcttcatgttg-gattgtcctgaatcatcttg------aaatatcagctaatgttatttcaagtaaatgttcacatgtttgttttca--tgttgag---gaa------------------------------------------------------
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GCCCGAGCTCGGGTTCGCTCCCGAGGACGCCGACCGCCTCGTCGCCTCCTTCAGTGGTGGGTGGCAGATGAGGATGTCCCTCGGCAAGATTCTTCTTCAGgtacagataaaaaagaaaatttgagctctacatgtagcaatcaatggttgtcatattgtgatggagagaaaaatgagtggtattatggccaattggtgatgaatttggtctggattgttgaatttgaattgtagtttttagtgtctgtgtgcatttccaatgctgaaattgattgtgtgcag
upper sequence: GLYMA04G39670.1 (Glycine max), 5'ss of exon 1
lower sequence: AT5G64840.1 (Arabidopsis thaliana), 5'ss of exon 1
GCCTGAGCTTGGTTTTGCTCCTGAGGATTCTGATAGGCTGGTCGCGTCTTTCAGTGGAGGCTGGCAGATGAGGATGTGTCTCGGCAAGATTCTACTTCAGgtgtgttaatgcttcatgttggattgtcctgaatcatcttgaaatatcagct-aatgttatttcaagtaaatgttcacatgtttgttttcatgttgaggaa
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GCCGGAATTAGGGTTTGCTCCTGAGGATGCTGATAGGCTTGTGGCTTCGTTTAGTGGTGGATGGCAAATGAGAATGTCACTTGGAAAGATTTTGCTTCAGgtatatgaatgattgtttacttaaagttttatcctttcaatgagtttgaactcaaagctaatgtgaatgaat---tgtgtgtttctttgcgagtag-----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|254327296|gb|GR836905.1|GR836905EST: TCAGTGGAGGCTGGCAGATGAGGATGTGTCTCGGCAAGATTCTACTTCAG GAGCCTGATTTGTTGCTGTTAGATGAGCCTACAAATCACCTTGATCTTGAC
genomic: TCAGTGGAGGCTGGCAGATGAGGATGTGTCTCGGCAAGATTCTACTTCAGgtgtgttaat ... ttgtttgcagGAGCCTGATTTGTTGCTGTTAGATGAGCCTACAAATCACCTTGATCTTGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCCTGAGCTTGGTTTTGCTCCTGAGGATTCTGATAGGCTGGTCGCGTCTTTCAGTGGAGGCTGGCAGATGAGGATGTGTCTCGGCAAGATTCTACTTCAGgtgtgttaatgcttcatgttggattgtcctgaatcatcttgaaatatcagctaatgttatttcaagtaaatgttcacatgtttgttttcatgttgaggaa
- - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA