Sequence
atgc intronic sequence ATGC exonic sequencegtagatcttccttatatctcaaacttctgttgaaattttgaaatctaagaagcaaactatttttcagGGGAGCCAGAAACAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTT
Basic information
species | Glycine max |
transcript | GLYMA16G05180.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G05180.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os11g32490.1 (Oryza sativa), 3'ss of exon 8
------------------------------------gtagatcttcct-tatatctcaaacttctg--ttgaaattttgaaa----tctaagaagcaaactatttttcagGGGAGCCAGAAACA-AATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTT
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gtatcgctctgttatacatgtattcatctaaccatcctaagtaatgtaacatttttaaatcttctggcttggcacactgaatactttcttgtttcgattgtaaattaaaagGAAATCAAGCACAGAAGCCAAGCCGGATCGAGGAATATTTGTAAAGCATTTCAAGAACATTCCAATGGCTGATATGGAATTAGTTCTG
upper sequence: GLYMA16G05180.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os12g29550.1 (Oryza sativa), 3'ss of exon 8
---------------------------------------------gtagatcttccttatatctcaaacttctgttgaaatt---ttgaaatctaagaagcaaactat-ttttcagGGGAGCCAGAAACAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTT
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gtaactttgaccctttgatattttgtttagccaatctccacattcatgaaggatcctaat-tttagaagtgctgatgtagtacaattggttccttccgatgattgtatatgtgcagGAGGGCAGGTACTAAGACTAAGCCTGATCGAGGAATATTTGTAAAGCATTTCAAGAATATCCCAATGGCTGACATGGAAATTGTTCTT
upper sequence: GLYMA16G05180.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G19340.1 (Arabidopsis thaliana), 3'ss of exon 8
-----gtagatcttccttatatctcaaacttctgtt-gaaattttg-aaatctaagaagcaaact-----------atttttcagGGGAGCCAGAAACAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTT
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gtaaggtatatgtatgtcttgtttcagctatttgtttgtaactttgtgaacttgtggttcaagcttgtggtttatgatgttgcagACGAGCTAGCTCTAAAACAAATCTAGAACGAGGAATCTACGTTAAGCATTTCAAAAACATTCCTATGGCTGACATGGAGATTGTGCTT
upper sequence: GLYMA16G05180.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv14s0068g01000.t01 (Vitis vinifera), 3'ss of exon 8
--------------------------gtagatcttccttatatctcaaacttctgttgaaatt------ttgaaatctaagaag-caaactatttttcagGGGAGCCAGAAACAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTT
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aaattaccaaggtccttgtctgaagtgctctccgatcttagcatttaaaacaccatggagaataattcattggcatctaacaagataggtgactttgcagGCGGGCATGTACGGCAGCAAAACCAGAGCGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCTGATATGGAAATAGTCCTGMapped 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|192334227|gb|FK026608.1|FK026608EST: AAGACCTTAATCCAAGGACCAACATTTGATAGGATAATTGTTGTCTACAG GGGAGCCAGAAACAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTT
genomic: AAGACCTTAATCCAAGAACCAACATTTGATAGGATAATTGTTGTCTACAGgtagatcttc ... tatttttcagGGGAGCCAGAAACAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatatctcaaacttctgttgaaattttgaaatctaagaagcaaactatttttcagGGGAGCCAGAAACAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTT
ctatttttc CT-rich tract
aaattttgaaatctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagatcttccttatatctcaaacttctgttgaaattttgaaatctaagaagcaaactatttttcagGGGAGCCAGAAACAAATCAAAAGAAGAACGAGGAATATATGTGAAGCATTTCAAAAACATTCCAATGGCCGATATGGAAATAGTTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC