Sequence
atgc intronic sequence ATGC exonic sequencegttagtttcttgtgctaataatatccttcatgacctcaaccactactactatcatcattatcatttgtctttgtttgaaattcagtttaagtgcagttttcttgactgcacaagacttactggtattatttagcaaacaaataatctatgatctgtaaatatgtttttttgatcttgttcacattaaccagGCGTTGGGATATCCATATTTCATTGGATATCATTGGACACTGGTTAGATTTGATGAATGCTGATGGATGGATACCACGTGAACAAATTCTCGGGGCTGAA
Basic information
species | Glycine max |
transcript | GLYMA05G27890.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G27890.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g69210.1 (Oryza sativa), 3'ss of exon 10
gttagtttcttgtgctaataatatccttcatgacctcaaccactactactatcatcattatcatttgtctttgtttgaaattcagtttaagtgcagttttcttgactgcacaagacttactggtattatttagcaaacaaataatctatgatctgtaaatatgtttttttgatcttgttcacattaaccagGCGTTGGGATATCCATATTTCATTGGATATCATTGGACACTGGTTAGATTTGATGAATGCTGATGGATGGATACCACGTGAACAAATTCTCGGGGCTGAA
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--------------------------------------------------------------gtaagcatttcatcgatcttgatgtgtagcgcagggcttctgccactatatca-tcactcgctttttttttgaatctgtgctggtattattgctgcttgt-ttaacacatccttgatggtgatgtatagGCGCTGGGATGTGCATATATCGATGGATATAATTGGTCACTGGTTAGATCTAATAAATGCGGATGGATGGATTCCTCGGGAGCAAATATTAGGAGCTGAA
upper sequence: GLYMA05G27890.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G126468_T01 (Zea mays), 3'ss of exon 10
gttagtttcttgtgctaataatatccttcatgacctcaaccactactactatcatcattatcatttgtctttgtttgaaattcagtttaagtgcagttttcttgactgcacaagacttactggtattatttagcaaacaaataat--ctatgatctgtaaatatgtttttttgatcttgttcacattaaccagGCGTTGGGATATCCATATTTCATTGGATATCATTGGACACTGGTTAGATTTGATGAATGCTGATGGATGGATACCACGTGAACAAATTCTCGGGGCTGAA
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-------------------------------------------------------------------------------------------------------------gtaactattact--ttttatctcagcgttgaatgaaggttttcttctgtctgctctaactcacatccttggtggtgatgtgcagGCGTTGGGATGTGCATATATCTATGGATATCATTGGACATTGGTTAGATCTGCTTAATTCAGATGGATGGATTCCTAGGGAGCAAATCTTAGGAGCTGAA
upper sequence: GLYMA05G27890.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv01s0010g03300.t01 (Vitis vinifera), 3'ss of exon 10
gttagtttcttgtgctaataatatccttcatgacctcaaccactactactatcatcattatcat-ttgtctttgtttgaaattcagtttaagtgcagttttcttgactgcacaagacttactggtattatttagcaaaca--aataatctatgatctgtaaatatgtttttttgatcttgttcacattaaccagGCGTTGGGATATCCATATTTCATTGGATATCATTGGACACTGGTTAGATTTGATGAATGCTGATGGATGGATACCACGTGAACAAATTCTCGGGGCTGAA
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-----------------------------gttagtt-gattattattgtttgcatttgcattttgttttttctccctcaagtgctggttat---caattacctacatctttagggaaataggtgttcattttgccacacattggaaataaatcttcctttgttccacttaacatatttctgactc-ttgaacagGCGTTGGGACATCCGCATTTGTTTGGATATAATTGGACATTGGTTAGATTTAATGAACATTGATGGATGGATACCAAGGGAGCAAATTTTGGGTGCCGAAMapped 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|298189071|gb|HO037474.1|HO037474EST: TTTCCAAGAGGATTTTTATGGGATGAAGGTTTTCATCAACTAATAATCTG GCGTTGGGATATCCATATTTCATTGGATATCATTGGACACTGGTTAGATTT
genomic: TTTCCAAGAGGATTTTTATGGGATGAAGGTTTTCATCAACTAATAATCTGgttagtttct ... cattaaccagGCGTTGGGATATCCATATTTCATTGGATATCATTGGACACTGGTTAGATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaaataatctatgatctgtaaatatgtttttttgatcttgttcacattaaccagGCGTTGGGATATCCATATTTCATTGGATATCATTGGACACTGGTTAGATTTGATGAATGCTGATGGATGGATACCACGTGAACAAATTCTCGGGGCTGAA
ttttgat putative branch site (score: 4)
taaatatgtttttttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtttcttgtgctaataatatccttcatgacctcaaccactactactatcatcattatcatttgtctttgtttgaaattcagtttaagtgcagttttcttgactgcacaagacttactggtattatttagcaaacaaataatctatgatctgtaaatatgtttttttgatcttgttcacattaaccagGCGTTGGGATATCCATATTTCATTGGATATCATTGGACACTGGTTAGATTTGATGAATGCTGATGGATGGATACCACGTGAACAAATTCTCGGGGCTGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA