Sequence
atgc intronic sequence ATGC exonic sequencegtagaacttgaaactagaatgtgaagctttctccatgtgttttttgtgttgcatacttgggagattgactctagcaaaattttcctttttgtgaagGTTCAAGCTGCTCGTGATGAAATGCAATGGGGTGAGGAGGGCCCACCTCCATTGCTGGTAAAAATAGCTCCAGATTTGTCAAAAGAAGACCTTGAAGATA
Basic information
species | Glycine max |
transcript | GLYMA10G43220.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G43220.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv10s0042g00140.t01 (Vitis vinifera), 3'ss of exon 5
gtagaacttgaaactagaatgtgaagctttctccatgtgttttttgtgttgcatacttgggagattgactctagcaaaattttcctttttgtgaagGTTCAAGCTGCTCGTGATGAAATGCAATGGGGTGAGGAGGGCCCACCTCCATTGCTGGTAAAAATAGCTCCAGATTTGTCAAAAGAAGACCTTGAAGATA
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--gtattttgccgcaggcagaaaattaatgttctgtttatccatttgatcatattct---gatattgaatttag---atcttttgtttccatcaagGTTCAAGGTGCTCGTGATGAAATGCAATGGGGTGAGGAGGGCCCACCTCCATTGCTTGTGAAAATTGCTCCAGACTTGTCTAAAGAGGACCTTGAAGATA
upper sequence: GLYMA10G43220.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S291_29V6.1 (Physcomitrella patens), 3'ss of exon 5
--gtaga-acttgaaa--ctagaatgtgaagctttctccatgtgttttttgtgttgcatacttgggagattgactctagcaaaattttcctttttgtgaagGTTCAAGCTGCTCGTGATGAAATGCAATGGGGTGAGGAGGGCCCACCTCCATTGCTGGTAAAAATAGCTCCAGATTTGTCAAAAGAAGACCTTGAAGATA
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gtatgcatatgtgaatttcttacattcgaacatctgctgactatatctcagcagcttctacttgacagaacgattaatcctgttcagaggtgcttttgtagGTTCTAGCTGCTCGAGATGAAATGCAGTGGGGAGAGGCTGGGCCACCTCCATTACTGGTGAAAATCTCACCCGATTTATCAAAGCAGGACTTGGCGGACA
upper sequence: GLYMA10G43220.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S29_152V6.1 (Physcomitrella patens), 3'ss of exon 6
---gtagaacttgaaactagaatgtgaagctt-tctccatg-tgttttttgtgttgcatacttgggagattgactctagcaaaattttcctttttgtgaagGTTCAAGCTGCTCGTGATGAAATGCAATGGGGTGAGGAGGGCCCACCTCCATTGCTGGTAAAAATAGCTCCAGATTTGTCAAAAGAAGACCTTGAAGATA
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gtactgatacgtgagttttatgtattctgattatctgtctggcggtatcgaggtaatctccttttgacagtacaactgattcggtagtatactct-tacagGTTCTAGCTGCTCGAGATGAAATGCAGTGGGGAGAGGCTGGTCCGCCTCCGTTACTGGTGAAAATTGCTCCTGATTTGTCAAAGCAGGACTTGGCTGACAMapped 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|298167481|gb|HO012744.1|HO012744EST: GTTTGCGCATGCTTCAAGGAAGAAAGCAATTGAAGGATCTAGTGAAGAAG GTTCAAGCTGCTCGTGATGAAATGCAATGGGGTGAGGAGGGCCCACCTCCA
genomic: GTTTGCGCATGCTTCAAGGAAGAAAGCAATTGAAGGATCTAGTGAAGAAGgtagaacttg ... ttttgtgaagGTTCAAGCTGCTCGTGATGAAATGCAATGGGGTGAGGAGGGCCCACCTCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgtgttgcatacttgggagattgactctagcaaaattttcctttttgtgaagGTTCAAGCTGCTCGTGATGAAATGCAATGGGGTGAGGAGGGCCCACCTCCATTGCTGGTAAAAATAGCTCCAGATTTGTCAAAAGAAGACCTTGAAGATA
gattgac putative branch site (score: 3)
ttttcctttttgt putative PPT
aaaattttccttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagaacttgaaactagaatgtgaagctttctccatgtgttttttgtgttgcatacttgggagattgactctagcaaaattttcctttttgtgaagGTTCAAGCTGCTCGTGATGAAATGCAATGGGGTGAGGAGGGCCCACCTCCATTGCTGGTAAAAATAGCTCCAGATTTGTCAAAAGAAGACCTTGAAGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA