Sequence
atgc intronic sequence ATGC exonic sequencegtaatggtaaaacatgagcaaattgccatgtcagtatgactgtttattatttttatcaatattattcttcaactgtcttctttgacaataacccagcctacctttttctcttctaatttttgtagCTGGTGGAAGCATTTCAAGCTACCCTGGAAGAAGTGGTGGAAGCAGACCTGCTTGTG
Basic information
species | Glycine max |
transcript | GLYMA02G44930.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G44930.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os03g51790.1 (Oryza sativa), 3'ss of exon 9
gtaatggtaaaacatgagcaaattgccatgtcagtatgactgtttattatttttatcaatattattcttcaactgtcttctttgacaataacccagcctacctttttctcttctaatttttgtagCTGGTGGAAGCATTTCAAGCTACCCTGGAAGAAGTGGTGGAAGCAGACCTGCTTGTG
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------------------------gccactttggtctaggcctccaggggaacc-ttaatgatgcatgaaagcctttttcaactactgtggtgacagtaataatatagtaacctttcttgtgcagCTAGTGGAAGCATTTCATGCTACTTTGGAAGAAGTTGTTGAAGCAGATATGTTAGTG
upper sequence: GLYMA02G44930.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G101460_T01 (Zea mays), 3'ss of exon 9
gtaatggtaaaacatgagcaaattgccatgtcagtatgactgtttattatttttatcaatattattcttcaactgtcttctttgacaataacccagcctacctttttctcttctaatttttgtagCTGGTGGAAGCATTTCAAGCTACCCTGGAAGAAGTGGTGGAAGCAGACCTGCTTGTG-------------------------------------------
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------------------ttaatt--tgtactgatttggcaaccttgacctttcttctgcattgtttgaca----ctttctatgtcag-gttattgttaacctctttattttgttttttccccagCTTGTGGAAGCATTTCATGCGACCCTAGAAGAAGTTGTTGAAGCAGACATGTTAGTGGTAGGTTTTCTTTTCTTCTTGAAGTCTGGAGTTGAGCATGACT
upper sequence: GLYMA02G44930.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G101460_T02 (Zea mays), 3'ss of exon 10
gtaatggtaaaacatgagcaaattgccatgtcagtatgactgtttattatttttatcaatattattcttcaactgtcttctttgacaataacccagcctacctttttctcttctaatttttgtagCTGGTGGAAGCATTTCAAGCTACCCTGGAAGAAGTGGTGGAAGCAGACCTGCTTGTG
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------------------ttaatt--tgtactgatttggcaaccttgacctttcttctgcattgtttgaca----ctttctatgtcag-gttattgttaacctctttattttgttttttccccagCTTGTGGAAGCATTTCATGCGACCCTAGAAGAAGTTGTTGAAGCAGACATGTTAGTG
upper sequence: GLYMA02G44930.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv00s0734g00020.t01 (Vitis vinifera), 3'ss of exon 10
gtaatggtaaaacatgagcaaattgccatgtcagtatgactgtttattatttttatcaatattattcttcaactgtcttctttgacaataacccagcctacctttttctcttctaatttttgtagCTGGTGGAAGCATTTCAAGCTACCCTGGAAGAAGTGGTGGAAGCAGACCTGCTTGTG
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-----------------------------------gtagctggggagtacttgcaactgctttattcatttgat-taatcattctcagttattttagctat-tcacatacgacttatttttctagTTAGTGGAAGCATTTCATGCAACCTTGGAAGAAGTGGTGGAAGCAGACTTACTAGTGMapped 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|192327889|gb|FK022448.1|FK022448EST: AAGTGCTTTTCAGCGACACTGTGGGATTCATATCTGACTTGCCTGTACAG CTGGTGGAAGCATTTCAAGCTACCCTGGAAGAAGTGGTGGAAGCAGACCTG
genomic: AAGTGCTTTTCAGCGACACTGTGGGATTCATATCTGACTTGCCTGTACAGgtaatggtaa ... atttttgtagCTGGTGGAAGCATTTCAAGCTACCCTGGAAGAAGTGGTGGAAGCAGACCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactgtcttctttgacaataacccagcctacctttttctcttctaatttttgtagCTGGTGGAAGCATTTCAAGCTACCCTGGAAGAAGTGGTGGAAGCAGACCTGCTTGTG
ttctaat putative branch site (score: 2)
cctacctttttctctt CT-rich tract
ttctaatttttgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatggtaaaacatgagcaaattgccatgtcagtatgactgtttattatttttatcaatattattcttcaactgtcttctttgacaataacccagcctacctttttctcttctaatttttgtagCTGGTGGAAGCATTTCAAGCTACCCTGGAAGAAGTGGTGGAAGCAGACCTGCTTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG