Sequence
atgc intronic sequence ATGC exonic sequence...cttttgtatttgttattatgctgggtaaataataacagataacaaaacaaatatcaccttaactatttttttgagtttatctaagaatttattatgttagGTAACTGGTGAAGGAGATGACAAATATCTGATTGCAACAGCAGAGCAGCCACTCTGTGCATATCATTTAGATGATTGGATCCACCCTACCCAGCTACCAA
Basic information
species | Glycine max |
transcript | GLYMA10G29600.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G29600.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G27470.1 (Arabidopsis thaliana), 3'ss of exon 5
cttttgtatttgttattatgctgggtaaataataacagataacaaaacaaatatcacctta-actatttttttgagtttat--ctaagaatttattatgtt-agGTAACTGGTGAAGGAGATGACAAATATCTGATTGCAACAGCAGAGCAGCCACTCTGTGCATATCATTTAGATGATTGGATCCACCCTACCCAGCTACCAA
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--------------------gtatttaattgttacaaaacatctgtgtacttgtcttgttagagtagttttattcatagaagattgtgttttttttttgtccagGTGACTGGTGAAGGAGATGACAAATACCTCATTGCAACTGCTGAGCAGCCTCTTTGTGCGTACCATATTGATGAATGGATTCATCCGACTGAGCTTCCCC
upper sequence: GLYMA10G29600.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0128g00370.t01 (Vitis vinifera), 3'ss of exon 5
cttttgtatttgttattatgctgggtaaataataacag-ataacaaaacaaatatcaccttaactatttt--tttgagtttatctaag--aatttat-tatgttagGTAACTGGTGAAGGAGATGACAAATATCTGATTGCAACAGCAGAGCAGCCACTCTGTGCATATCATTTAGATGATTGGATCCACCCTACCCAGCTACCAA
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-----actcttctttttagatcaaagaaata-taacagcacgcttatattgaaactatttttcccactataacgtgggcctgactgatttagttggtgtttaatagGTAACTGGTGAGGGAGATGACAAATATTTGATTGCAACAGCCGAACAACCCCTCTGTGCTTATCATTTGGATGATTGGATACATCCTTCCCAGTTACCCTMapped 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|151397414|gb|EV267287.1|EV267287EST: TAATGTCAAAGTGTGCTCAACTAGCCCAATTTGATGAAGAACTTTATAAG GTAACTGGTGAAGGAGATGACAAATATCTGATTGCAACAGCAGAGCAGCCA
genomic: TAATGTCAAAGTGTGCTCAACTAGCCCAATTTGATGAAGAACTTTATAAGgtaaaattgt ... attatgttagGTAACTGGTGAAGGAGATGACAAATATCTGATTGCAACAGCAGAGCAGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacaaatatcaccttaactatttttttgagtttatctaagaatttattatgttagGTAACTGGTGAAGGAGATGACAAATATCTGATTGCAACAGCAGAGCAGCCACTCTGTGCATATCATTTAGATGATTGGATCCACCCTACCCAGCTACCAA
ccttaac putative branch site (score: 3)
ttaactatttttttga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttttgtatttgttattatgctgggtaaataataacagataacaaaacaaatatcaccttaactatttttttgagtttatctaagaatttattatgttagGTAACTGGTGAAGGAGATGACAAATATCTGATTGCAACAGCAGAGCAGCCACTCTGTGCATATCATTTAGATGATTGGATCCACCCTACCCAGCTACCAA
- - - - - - - - tatgctg
- - - - - - - - - - - - - - - - - - - - - - aaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - -tcacctt