Sequence
atgc intronic sequence ATGC exonic sequence...tgcctgttggctcctgatatgttatctgctcaaactatcatggcatcattttgttcacttgaagagactctcttttttaattgtttacattatcacacagGAAATTACTGGTGGAAAGGGTGTTGATGTTGCTGTGGAAGCCTTGGGGAAACCACAGACATTTGCTCAGTGCACACAAAGTGTGAAGGATGGGGGGAAAG
Basic information
species | Glycine max |
transcript | GLYMA05G33140.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G33140.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G63620.1 (Arabidopsis thaliana), 3'ss of exon 6
tgcctg-ttggctcctgatatgttatctgctcaaactatcatggcatcattttgttcacttgaagagactctcttttttaattgtttacattatcacacagGAAATTACTGGTGGAAAGGGTGTTGATGTTGCTGTGGAAGCCTTGGGGAAACCACAGACATTTGCTCAGTGCACACAAAGTGTGAAGGATGGGGGGAAAG
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-gtatggttgattcaagacctcttatttgtgaagatgaac----cattgattgatataaat-atgaaaaactgtttcttcttcgt--------------agGAAATAACCGGTGGGATGGGTGTTGATGTTGCTGTTGAAGCCTTGGGAAAGCCTCAAACTTTCATGCAGTGCACACTAAGTGTGAAAGATGGTGGAAAAG
upper sequence: GLYMA05G33140.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv07s0031g03150.t01 (Vitis vinifera), 3'ss of exon 6
----tgcctgttggctcctgatatgttatctgctcaaactatcatggcatcattttgttcacttgaagagactctcttttttaattgtttacattatcacacagGAAATTACTGGTGGAAAGGGTGTTGATGTTGCTGTGGAAGCCTTGGGGAAACCACAGACATTTGCTCAGTGCACACAAAGTGTGAAGGATGGGGGGAAAG
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catgtaaacatccatttatcattttatatctacccatgcatagacattcttactctgtaag---gaagtgac-caattacttaactatttacttatttcaacagGAAATAACAGGAGGAAGGGGTGTGGATGTTGCTGTGGAGGCCTTGGGAAAACCGCTGACATTTGCACAGTGCACCCAAAGTGTACGAGATGGAGGAAAAGMapped 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|13481543|gb|BG510886.1|BG510886EST: CTACTCACACTGTAAATTCAGCAAAGGAAGATCCCATTGAAAAGATACTT GAAATTACTGGTGGAAAGGGTGTTGATGTTGCTGTGGAAGCCTTGGGGAAA
genomic: CTACTCACACTGTAAATTCAGCAAAGGAAGATCCCATTGAAAAGATACTTgtatgtgcat ... tatcacacagGAAATTACTGGTGGAAAGGGTGTTGATGTTGCTGTGGAAGCCTTGGGGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcattttgttcacttgaagagactctcttttttaattgtttacattatcacacagGAAATTACTGGTGGAAAGGGTGTTGATGTTGCTGTGGAAGCCTTGGGGAAACCACAGACATTTGCTCAGTGCACACAAAGTGTGAAGGATGGGGGGAAAG
ttttaat putative branch site (score: 3)
tcttttttaattgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcctgttggctcctgatatgttatctgctcaaactatcatggcatcattttgttcacttgaagagactctcttttttaattgtttacattatcacacagGAAATTACTGGTGGAAAGGGTGTTGATGTTGCTGTGGAAGCCTTGGGGAAACCACAGACATTTGCTCAGTGCACACAAAGTGTGAAGGATGGGGGGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG