Sequence
atgc intronic sequence ATGC exonic sequence...cagaaattcaacactactttccagtaaaataaaatttgcagtgtaatttcttcctcttttaattaagactgctgagagcaacttgaattatattggctagGTGGTCACAGATATCACAGCATTTGCCAGGAAGGACAGACAATGAGATTAAAAACTATTGGCATTCATATTTGAAAAAGAGAGTGGCCAAAGCTAAGGAA
Basic information
species | Glycine max |
transcript | GLYMA10G38110.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G38110.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G52260.1 (Arabidopsis thaliana), 3'ss of exon 2
--------------cagaaattcaacactactttccagtaaaataaaatttg--cagtgtaatttcttcctcttttaattaag---actgctga---gagcaacttgaattatat-tggctagGTGGTCACAGATATCACAGCATTTGCCAGGAAGGACAGACAATGAGATTAAAAACTATTGGCATTCATATTTGAAAAAGAGAGTGGCCAAAGCTAAGGAA
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gtaagaaaccctaataaaaaatacaccttctatttttgttgtctacaatccattcaggtctatgtgaaaaaccattcattaagtagatttttcatttgatttttatgatttgggtctgattagGTGGTCTCGGATTGCAAAATATTTACCGGGAAGAACAGACAACGAGATTAAGAACTATTGGCATTCCTATCTGAAGAAGAGATGGCTCAAATCTCAACCA
upper sequence: GLYMA10G38110.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G25560.1 (Arabidopsis thaliana), 3'ss of exon 2
cagaaattcaacactactttccagtaaaataaaatttgcagtgtaatttcttcctcttttaattaagactgctga--gagcaact--tgaattatat-tggctagGTGGTCACAGATATCACAGCATTTGCCAGGAAGGACAGACAATGAGATTAAAAACTATTGGCATTCATATTTGAAAAAGAGAGTGGCCAAAGCTAAGGAA
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-----------------------gtaagtgtatctctaagacctaa--ccctattgttttagcagatgctagttatagagagactaatgatttaggtgtaattagGTGGTCGCAAATAGCTAAATTCTTACCGGGAAGAACAGACAATGAGATAAAGAACTATTGGCACTCTCATTTGAAAAAGAAATGGCTCAAGTCTCAGAGC
upper sequence: GLYMA10G38110.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv16s0050g00050.t01 (Vitis vinifera), 3'ss of exon 2
cagaaattcaacactactttcca-gtaaaataaaatttgcagt-gtaatttcttcctctttta-attaagactgctgagagcaacttgaattatattggctagGTGGTCACAGATATCACAGCATTTGCCAGGAAGGACAGACAATGAGATTAAAAACTATTGGCATTCATATTTGAAAAAGAGAGTGGCCAAAGCTAAGGAA
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--gggacagaa-actattctccatgagaaactcaattcttggttgtggatgttccttattttgtattgaaatgattgaatttatcaatattttcattgatcagGTGGTCTCAGATAGCGCAGAATTTTCCTGGAAGAACTGATAATGAGATTAAGAACTACTGGCATTCATGTCTCAAGAAGAAAGTGGTGAAAGCTCAGGAAMapped 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|192327064|gb|FK019281.1|FK019281EST: AAACAGGAAGAGGAGACAATCCTCACCCTTCACGACATGCTAGGCAACAA GTGGTCACAGATATCACAGCATTTGCCAGGAAGGACAGACAATGAGATTAA
genomic: AAACAGGAAGAGGAGACAATCCTCACCCTTCACGACATGCTAGGCAACAAgtaagccaga ... tattggctagGTGGTCACAGATATCACAGCATTTGCCAGGAAGGACAGACAATGAGATTAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcttcctcttttaattaagactgctgagagcaacttgaattatattggctagGTGGTCACAGATATCACAGCATTTGCCAGGAAGGACAGACAATGAGATTAAAAACTATTGGCATTCATATTTGAAAAAGAGAGTGGCCAAAGCTAAGGAA
ttttaat putative branch site (score: 3)
aacttgaattatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagaaattcaacactactttccagtaaaataaaatttgcagtgtaatttcttcctcttttaattaagactgctgagagcaacttgaattatattggctagGTGGTCACAGATATCACAGCATTTGCCAGGAAGGACAGACAATGAGATTAAAAACTATTGGCATTCATATTTGAAAAAGAGAGTGGCCAAAGCTAAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - caacact
- - - - - - - - ctttcca
- - - - - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - - - - tgcagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgctga