Sequence
atgc intronic sequence ATGC exonic sequence...gtgaaaccacacatttacaattttcaataaattttgtcatatgtgtttgatatatatatttctaaaaattatgtacttctcatggtggtcactactgtagGAATCAGAGAAGGTGGCATTGGCTGAATCAACTGGTTTGGACCAAAAGCAAATAAATAACTGGTTCATAAACCAGAGGAAGAGGCATTGGAAACCATCTG
Basic information
species | Glycine max |
transcript | GLYMA14G10430.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G10430.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g56110.2 (Oryza sativa), 3'ss of exon 4
gtgaaaccacacatt-tacaattttcaataaattttgtcatatgtgtttgatatatatatttc--taaaaattatgtacttctcatggtggtcactact-gtagGAATCAGAGAAGGTGGCATTGGCTGAATCAACTGGTTTGGACCAAAAGCAAATAAATAACTGGTTCATAAACCAGAGGAAGAGGCATTGGAAACCATCTG
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--gtacgcacgcatcacatcccgtttgatcaattcaaccacattttctgcaccaaattaactcgtttgaaaatgcgtgaaatttacggggttgtgtatgagcagGAGATGGAGAAGATGACGCTGGCGCAGACGACGGGGCTGGACCAGAAGCAGATCAACAACTGGTTCATCAACCAGAGGAAGCGGCACTGGAAGCCGACGC
upper sequence: GLYMA14G10430.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g51690.3 (Oryza sativa), 3'ss of exon 3
gtgaaaccacacatttacaatttt---caataaattttgtcatatgtgtttgatatatatatttctaaaaattatgtacttctcatggtggtcactactgtagGAATCAGAGAAGGTGGCATTGGCTGAATCAACTGGTTTGGACCAAAAGCAAATAAATAACTGGTTCATAAACCAGAGGAAGAGGCATTGGAAACCATCTG
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---tagttatctactaccatttctgtgctataaaatataatgcaagctatcgccatgcagatttcctgatcatggttatgtatctattttacatgtggagcagGAGAGTCAGAAGGTGGCACTGGCGGAGTCGACGGGGCTGGACCTGAAGCAGATCAACAACTGGTTCATCAACCAGAGGAAGCGGCACTGGAAGCCCTCCG
upper sequence: GLYMA14G10430.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G08150.1 (Arabidopsis thaliana), 3'ss of exon 4
-gtgaaaccacacatttacaattttcaataaattttgtcatatgtgtttgatatatatatttctaaa-aattatgtacttctcatggtggtcactactgtagGAATCAGAGAAGGTGGCATTGGCTGAATCAACTGGTTTGGACCAAAAGCAAATAAATAACTGGTTCATAAACCAGAGGAAGAGGCATTGGAAACCATCTG
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tctagaatcatttaaaaataattttcgattatctctagcat-tgctttttatacattgattactacataaatgaagatggttggtttgagttg-tgtggcagGAGTCAGAGAAGGTAGCGTTGGCGGAATCAACGGGGTTAGATCAGAAACAAATCAACAATTGGTTCATAAACCAAAGAAAGCGTCACTGGAAACCATCTGMapped 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|6134992|gb|AW133385.1|AW133385EST: AAAAGCTACTTAACTGGTGGGAATTACATTACAAATGGCCATATCCTTCG GAATCAGAGAAGGTGGCATTGGCTGAATCAACTGGTTTGGACCAAAAGCAA
genomic: AAAAGCTACTTAACTGGTGGGAATTACATTACAAATGGCCATATCCTTCGgtatgtaaac ... actactgtagGAATCAGAGAAGGTGGCATTGGCTGAATCAACTGGTTTGGACCAAAAGCAA
EST:
gi|15814029|gb|BI786304.1|BI786304EST: AAAAGCTACTTAACTGGTGGGAATTACATTACAAATGGCCATATCCTTCG GAATCAGAGAAGGTGGCATTGGCTGAATCAACTGGTTTGGACCAAAAGCAA
genomic: AAAAGCTACTTAACTGGTGGGAATTACATTACAAATGGCCATATCCTTCGgtatgtaaac ... actactgtagGAATCAGAGAAGGTGGCATTGGCTGAATCAACTGGTTTGGACCAAAAGCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgatatatatatttctaaaaattatgtacttctcatggtggtcactactgtagGAATCAGAGAAGGTGGCATTGGCTGAATCAACTGGTTTGGACCAAAAGCAAATAAATAACTGGTTCATAAACCAGAGGAAGAGGCATTGGAAACCATCTG
ttctaaa putative branch site (score: 2)
tatatatatttctaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaaaccacacatttacaattttcaataaattttgtcatatgtgtttgatatatatatttctaaaaattatgtacttctcatggtggtcactactgtagGAATCAGAGAAGGTGGCATTGGCTGAATCAACTGGTTTGGACCAAAAGCAAATAAATAACTGGTTCATAAACCAGAGGAAGAGGCATTGGAAACCATCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - ccacaca
- - - - - - - - - - - - - - - - - - - - - gtgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtggt