Sequence
atgc intronic sequence ATGC exonic sequence...tttttccatgtggttagtgatatagttttcttcattcgcttacacatgctgttcaattttcataattagcttgttaaagaaacttctttccttccttcagGAGGAGGCTCGGGCCGTTGGTCAGCTCAGGAACCAAAGATTGATAAATCTGCTTGGATGTTGTTGTGAAGGTGAAGAAAGGTTACTTGTTGCAGAATATA
Basic information
species | Glycine max |
transcript | GLYMA05G37870.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G37870.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G055561_T01 (Zea mays), 3'ss of exon 4
-tttttccatgtggttagt--gatatagttttcttcattcgcttacacatgctgttcaattttcataattagcttgttaaagaaacttctttccttccttcagGAGGAGGCTCGGGCCGTTGGTCAGCTCAGGAACCAAAGATTGATAAATCTGCTTGGATGTTGTTGTGAAGGTGAAGAAAGGTTACTTGTTGCAGAATATA
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tcttttttgtgtatatgattggattttatttgcttgccccgaaagtgcaaattttctaaga--catggtcaaacaatcaatctggcct-tttgatttgtgcagGAAGAAGCTAGATCAGTTGGCCTGCTCCGAAGCAAAAGGTTGGCAAATTTGCTTGGCTGTTGCTGCGAAGGTGATGAAAGGTTGCTTGTTGCAGAATACA
upper sequence: GLYMA05G37870.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G63500.1 (Arabidopsis thaliana), 3'ss of exon 2
tttttccatgtggttagtgatatagttttcttcattcgcttacacatgctgttcaattttcataattagcttgttaaagaaacttctttccttcctt-cagGAGGAGGCTCGGGCCGTTGGTCAGCTCAGGAACCAAAGATTGATAAATCTGCTTGGATGTTGTTGTGAAGGTGAAGAAAGGTTACTTGTTGCAGAATATA
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----------------gtaattt-gcttaataaagtc-tttacctttttatgttaatttggattcttggattttgaatctctggtctttgtttttttatagGAGGAAGCTAAAGCTGTTGGTCAATTAAGGAATTATAGAATGGCAAATCTTCTTGGATGTTGTTATGAAGGTGAAGAGAGACTTCTTGTTGCTGAGTTTA
upper sequence: GLYMA05G37870.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0025g03550.t01 (Vitis vinifera), 3'ss of exon 4
---tttttccatgtggttagtgatatagttttcttcat-tcgcttacacatgctgttcaattttcataattagcttgttaaagaaacttctttccttccttcagGAGGAGGCTCGGGCCGTTGGTCAGCTCAGGAACCAAAGATTGATAAATCTGCTTGGATGTTGTTGTGAAGGTGAAGAAAGGTTACTTGTTGCAGAATATA
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ccatgtttgcatttgattcgatgtgtaattggtttagtattgcatgaattttgagtccactttgtgtacttaaatctt----gatttttcctggataattttagGAAGAAGCAAGATCTGTTGGGCAGCTCCGAAATCACAGATTGGCAAATTTGCTTGGTTGTTGTTCTGAAGGAGATGAGAGGTTACTTGTCGCAGAATTTAMapped 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|213601516|gb|DB970432.1|DB970432EST: CTGTCAAACGGTTCAACAGAAATGCCTGGCCAGAAGCGCAGCCATTTTTG GAGGAGGCTCGGGCCGTTGGTCAGCTCAGGAACCAAAGATTGATAAATCTG
genomic: CTGTCAAACGGTTCAACAGAAATGCCTGGCCAGAAGCGCAGCCATTTTTGgtaagcatgc ... cttccttcagGAGGAGGCTCGGGCCGTTGGTCAGCTCAGGAACCAAAGATTGATAAATCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgctgttcaattttcataattagcttgttaaagaaacttctttccttccttcagGAGGAGGCTCGGGCCGTTGGTCAGCTCAGGAACCAAAGATTGATAAATCTGCTTGGATGTTGTTGTGAAGGTGAAGAAAGGTTACTTGTTGCAGAATATA
cttctttccttccttc CT-rich tract
ttcaattttcataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttccatgtggttagtgatatagttttcttcattcgcttacacatgctgttcaattttcataattagcttgttaaagaaacttctttccttccttcagGAGGAGGCTCGGGCCGTTGGTCAGCTCAGGAACCAAAGATTGATAAATCTGCTTGGATGTTGTTGTGAAGGTGAAGAAAGGTTACTTGTTGCAGAATATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - -ccatgtg
- - - - - - gttagtg
- - - - - - - - - - - - - - - ttcattc
- - - - - - - - - - - - - - - - - - - - - -acatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagaaa