Sequence
atgc intronic sequence ATGC exonic sequencettttgtttcaccttcctctcctttttagtctatgtagctgtatacttgaattattatattttttgtttgatttgctggtgactcatgatttgcttgagtaggCTTTGGAAACACATGGCTTCCCTGTTCCAAATGCAATAGAAAGCAATAGACATTGTGTAGTCATGTCACTCGTCCAAGGTTATCCTCTG
Basic information
species | Glycine max |
transcript | GLYMA18G04910.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G04910.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G51270.1 (Arabidopsis thaliana), 3'ss of exon 6
ttttgtt-tcaccttcctctcctttttagtctatgtagctgtatacttga-attattatattttttgtttgatttgctggtgactcatgatttgcttgagtaggCTTTGGAAACACATGGCTTCCCTGTTCCAAATGCAATAGAAAGCAATAGACATTGTGTAGTCATGTCACTCGTCCAAGGTTATCCTCTG
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----gttattgccttcttccactaatgtaacactattcttgtgggtgtatcatctttttattttatttttggcctaatgtttgtttggcttctgggtgagcagGCTTTGGAAGAACATGACTTTCCGGTTCCAAAAGCTATTGACTGCAATAGACATTGTGTTATCATGTCCCTTGTGCAAGGTTACCCCAT-
upper sequence: GLYMA18G04910.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 5
ttttgtttcaccttcctctcctttttagtctatgtagctgtatacttgaattattatattttttgtttgatttgctggtgactcatgatttgcttgagtaggCTTTGGAAACACATGGCTTCCCTGTTCCAAATGCAATAGAAAGCAATAGACATTGTGTAGTCATGTCACTCGTCCAAGGTTATCCTCTG
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gttcattgctgttttctattgcattt---caatttaattgtctttgctgtttgttccattagttga--aattagcctgatgcttcaactttgcttgagcagGCTTTGGAAGAACATGGTTTCCCTGTTCCAAATGCCGTGGACTGTAATAGACATTGTGTGGTTATGTCACTTGTCCAAGGTTATCCACT-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|14991103|gb|BI316776.1|BI316776EST: GCTCTATTTGTCTCGCCTCGCTGCACTTAAAGAATTTGCTCCCATGAAGG CTTTGGAAACACATGGCTTCCCTGTTCCAAATGCAATAGAAAGCAATAGAC
genomic: GCTCTATTTGTCTCGCCTCGCTGCACTTAAAGAATTTGCTTTCATGAAGGttttgtttca ... cttgagtaggCTTTGGAAACACATGGCTTCCCTGTTCCAAATGCAATAGAAAGCAATAGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaattattatattttttgtttgatttgctggtgactcatgatttgcttgagtaggCTTTGGAAACACATGGCTTCCCTGTTCCAAATGCAATAGAAAGCAATAGACATTGTGTAGTCATGTCACTCGTCCAAGGTTATCCTCTG
gtttgat putative branch site (score: 5)
tttgctt putative PPT
attatattttttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgtttcaccttcctctcctttttagtctatgtagctgtatacttgaattattatattttttgtttgatttgctggtgactcatgatttgcttgagtaggCTTTGGAAACACATGGCTTCCCTGTTCCAAATGCAATAGAAAGCAATAGACATTGTGTAGTCATGTCACTCGTCCAAGGTTATCCTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA