Sequence
atgc intronic sequence ATGC exonic sequencegtttgattgaatacccacagagggtggattatttcttttagcttcttttataaagatggatttggaatgtctttgttgttacttaactaatagtgacatttgtgttctgaatcctaatggaactgactacattgtttcagGTCGGTTTACAAAACTGTTCCAAATTGTGAACCTTGTCGACCCATTCAAAGATCTCCTATAGAAGGTTTCTATTTAGCTGGAGATTACACAAAACAAAAA
Basic information
species | Glycine max |
transcript | GLYMA18G00720.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G00720.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G410515_T01 (Zea mays), 3'ss of exon 13
gtttgattgaatacccacagagggtggattatttcttttagcttcttttataaagatggatttggaatgtctttgttgttacttaactaatagtgacatttgtgttctgaatcctaatggaactgactacattgtttcagGTCGGTTTACAAAACTGTTCCAAATTGTGAACCTTGTCGACCCATTCAAAGATCTCCTATAGAAGGTTTCTATTTAGCTGGAGATTACACAAAACAAAAA
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---------------------gtgaggat-atttgctgaagacacttcctgacagataaccataagtagctctagctctga--taattttatgtg----ttgttttct-aatgtttgtattctggcttgctttga--cagATCGGTTTACAAAACTGTCCCAAACTGTGAGCCTTGCCGGCCTCTCCAAAGGTCACCTATCGAAGGTTTCTATCTAGCTGGTGATTACACAAAGCAGAAA
upper sequence: GLYMA18G00720.1 (Glycine max), 3'ss of exon 12
lower sequence: AT4G14210.2 (Arabidopsis thaliana), 3'ss of exon 13
gtttgattgaatacccacagagggtggattatttcttttagcttcttttataaagatggatttggaatgtctttgttgttacttaactaatagtgacatttgtgttctgaatcctaatggaactgactacattgtttcagGTCGGTTTACAAAACTGTTCCAAATTGTGAACCTTGTCGACCCATTCAAAGATCTCCTATAGAAGGTTTCTATTTAGCTGGAGATTACACAAAACAAAAA
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---------------------------------------------gttagtgaagttgtaccatttatttagcttcaaatgagggaccaggctttacattgataaattcaacatctttctctattgttgcatgat--cagATCTGTGTACAAGACCATCCCAAACTGTGAACCATGTCGTCCTCTACAAAGATCACCTATTGAAGGATTCTACTTAGCTGGAGATTACACAAAACAGAAG
upper sequence: GLYMA18G00720.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 13
gtttgattgaatacccacagagggtggattatttcttttagcttcttttataaagatggatttggaatgtctttgttgttacttaactaatagtgacatt-tgtgttctga-atcctaatggaactgactacattgtttcagGTCGGTTTACAAAACTGTTCCAAATTGTGAACCTTGTCGACCCATTCAAAGATCTCCTATAGAAGGTTTCTATTTAGCTGGAGATTACACAAAACAAAAA
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----------------------------------------gttttttttttccacgtcaagttattgccttttgattttcgtttatttagtactattatagcatattgtaataattttaagctattggattca--acttcagATCTGTTTACAAAACTGTCCCAAATTGTGAACCTTGCCGTCCCTTACAAAGATCTCCTATAGAGGGCTTTTATTTAGCTGGGGACTACACAAAACAAAAA
upper sequence: GLYMA18G00720.1 (Glycine max), 3'ss of exon 12
lower sequence: PP1S369_27V6.1 (Physcomitrella patens), 3'ss of exon 9
--gtttgattgaatacccacagagggtggattatttctttta-gcttcttttataaagatggatttggaatgtctttgttgttacttaactaatagtgacatt-tgtgttc-----tgaatcctaatggaactgactacattgtttcagGTCGGTTTACAAAACTGTTCCAAATTGTGAACCTTGTCGACCCATTCAAAGATCTCCTATAGAAGGTTTCTATTTAGCTGGAGATTACACAAAACAAAAA
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gtactaagaactttacaccctactgtgggctcatctgcactatgctaaatttcttttaat---tttgccgtgtgtttgatttttcgcaagcaccagtagttttatgaattcacgagtaagcccttttctgaccg-ctgcatc-tttcagGTCGGTTTACAAGACGGTGCCAGATTGTGAGCCTTGTAGGCCACTTCAAAGATCACCTATTCCAAAGTTCTACATGGCGGGTGACTTCACTAAGCAGAAGMapped 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|31460437|gb|CD402405.1|CD402405EST: AGCAAAGCTAAGATTCTCAAGTACCATGTTGTTAAAACACCAAG GTCGGTTTACAAAACTGTTCCAAATTGTGAACCTGGTCGACCCATTCAAAG
genomic: AGCAAAGCTAAGATTCTCAAGTACCATGTTGTTAAAACACCAAGgtttgattga ... attgtttcagGTCGGTTTACAAAACTGTTCCAAATTGTGAACCTTGTCGACCCATTCAAAG
EST:
gi|192309609|gb|FK002889.1|FK002889EST: GACCAAAGCAAAGCTAAGATTCTCAAGTACCATGTTGTTAAAACACCAAG GTCGGTTTACAAAACTGTTCCAAATTGTGAACCTTGTCGACCCATTCAAAG
genomic: GACCAAAGCAAAGCTAAGATTCTCAAGTACCATGTTGTTAAAACACCAAGgtttgattga ... attgtttcagGTCGGTTTACAAAACTGTTCCAAATTGTGAACCTTGTCGACCCATTCAAAG
EST:
gi|192309608|gb|FK002888.1|FK002888EST: GACCAAAGCAAAGCTAAGATTCTCAAGTACCATGTTGTTAAAACACCAAG GTCGGTTTACAAAACTGTTCCAAATTGTGAACCTTGTCGACCCATTCAAAG
genomic: GACCAAAGCAAAGCTAAGATTCTCAAGTACCATGTTGTTAAAACACCAAGgtttgattga ... attgtttcagGTCGGTTTACAAAACTGTTCCAAATTGTGAACCTTGTCGACCCATTCAAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actaatagtgacatttgtgttctgaatcctaatggaactgactacattgtttcagGTCGGTTTACAAAACTGTTCCAAATTGTGAACCTTGTCGACCCATTCAAAGATCTCCTATAGAAGGTTTCTATTTAGCTGGAGATTACACAAAACAAAAA
aactgac putative branch site (score: 2)
ttgtttc putative PPT
attgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgattgaatacccacagagggtggattatttcttttagcttcttttataaagatggatttggaatgtctttgttgttacttaactaatagtgacatttgtgttctgaatcctaatggaactgactacattgtttcagGTCGGTTTACAAAACTGTTCCAAATTGTGAACCTTGTCGACCCATTCAAAGATCTCCTATAGAAGGTTTCTATTTAGCTGGAGATTACACAAAACAAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT