Sequence
atgc intronic sequence ATGC exonic sequenceGAAGGATCAGAGAAAGTGTCCTGAAGAGCCCCCAACAGGCTATATCCACGTCAGAGCAAGAAGGGGTCAGGCAACGGATAGCCACAGCCTTGCTGAAAGGgtactgtactctcttaaaaactagaaaattattattatctctatgtatggctacgtggtccccaccagtgtgctggctttccctagagtttttattatcttcatgtctcattctaatgttgcaagaaaatggattttcatttttcag
Basic information
species | Glycine max |
transcript | GLYMA06G17420.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G17420.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os08g42470.1 (Oryza sativa), 5'ss of exon 2
GAAGGATCAGAGAAAGTGTCCTGAAGAGCCCCCAACAGGCTATATCCACGTCAGAGCAAGAAGGGGTCAGGCAACGGATAGCCACAGCCTTGCTGAAAGGgtactgtactctcttaaaaactagaaaattattattatctctatgtatggctacgtggtccccaccagtgtgctggctttcc-ctagagtttttattatcttcatgtctcattctaatgttgcaagaaaatggattttcatttttcag
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GGAGGAGAAGAGCACCACTGAAGATGAGCCTCCAAAAGGGTACATCCATGTGAGGGCAAGGAGAGGACAGGCAACTGATAGCCACAGCCTTGCAGAGAGGgtactactactgcacttcactttggttttggttttgatttttctg-----ctgcttttgcatgagtggttt-ttggcttgcagcttctgcatcttttctcctggtctctgattct--tggtg---------acattttctctctacag
upper sequence: GLYMA06G17420.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM5G882527_T04 (Zea mays), 5'ss of exon 2
GAAGGATCAGAGAAAGTGTCCTGAAGAGCCCCCAACAGGCTATATCCACGTCAGAGCAAGAAGGGGTCAGGCAACGGATAGCCACAGCCTTGCTGAAAGGgtactgtac-----tctcttaaaaactag-aaaattattattatctctatgtatggctacgtggtccccaccagtg-tgctggctttccctagagtttttattatcttcatgt-ctcattctaatgt-tgcaagaaaatgg-attttcatttttcag-------------
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TGAGGAGAAGAGCGCTACTGAAGACGAGGCCACCAGGGGGTACATCCATGTGAGGGCGAGGAGGGGTCAGGCAACGGACAGCCACAGCCTTGCAGAGAGGgtacagtacacctctcactctaatccttgtagcattaatttgacagttagtcgtgtgtaatagtttggtctcagtacttcctgcctcccctct--ttttcgttatcttctcttgcatgaactgatgaacacctcccgatggcaattttttttgttggttggccttattag
upper sequence: GLYMA06G17420.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv01s0244g00010.t01 (Vitis vinifera), 5'ss of exon 2
GAAGGATCAGAGAAAGTGTCCTGAAGAGCCCCCAACAGGCTATATCCACGTCAGAGCAAGAAGGGGTCAGGCAACGGATAGCCACAGCCTTGCTGAAAGGgtactgtactctcttaaaaactagaaaattattattatctctatgtatggctacgtggtccccaccagtgtgctggctttccctagagtttttattatcttcatgtctcattctaatgttgcaagaaaatggattttcatttttcag
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GAAGAGGAAGAAGAAAGTGGTGAAAGAGGTCCCAAGTGGGTTTGTTCATGTGAGAGCAAGGAGGGGTGAAGCAACAGACAGTCACAGCCTTGCTGAAAGGgtattttagttgtt---atactacaaattaatta--actttggaaaatgacca-----ttcaaataaat---tcagcttttcattta-cttttgctgggtgggtttcactttccag-------------------------------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|298198903|gb|HO042266.1|HO042266EST: TCAGAGCAAGAAGGGGTCAGGCAACGGATAGCCACAGCCTTGCTGAAAGG GTGAGAAGAGAGAAGATAAGTGAAAGGATGAAGGTGTTGCAACGGCTTGTG
genomic: TCAGAGCAAGAAGGGGTCAGGCAACGGATAGCCACAGCCTTGCTGAAAGGgtactgtact ... catttttcagGTGAGAAGAGAGAAGATAAGTGAAAGGATGAAGGTGTTGCAACGGCTTGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAGGATCAGAGAAAGTGTCCTGAAGAGCCCCCAACAGGCTATATCCACGTCAGAGCAAGAAGGGGTCAGGCAACGGATAGCCACAGCCTTGCTGAAAGGgtactgtactctcttaaaaactagaaaattattattatctctatgtatggctacgtggtccccaccagtgtgctggctttccctagagtttttattatcttcatgtctcattctaatgttgcaagaaaatggattttcatttttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG