Sequence
atgc intronic sequence ATGC exonic sequenceGAAGTTTGTTGAAAAGACTGCCCCTATTGCTGTTTATACTTCTGGAAAAGGCTCATCAGCAGCTGGCCTAACCGCTTCTGTAATCCAAGATAGCGGCACTgtaagttcttaccttcctaaactgtttgtattagatcgcaaatttctactatactacttgttgaggtataatcataagcttgacctccatcaattttctttacaagtctctgattcatgttctatggtctctttag
Basic information
species | Glycine max |
transcript | GLYMA17G11220.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G11220.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os02g55410.2 (Oryza sativa), 5'ss of exon 10
GAAGTTTGTTGAAAAGACTGCCCCTATTGCTGTTTATACTTCTGGAAAAGGCTCATCAGCAGCTGGCCTAACCGCTTCTGTAATCCAAGATAGCGGCACTgtaagttcttaccttcctaaactgtttgtattagatcgcaaatttctactatactacttgttgaggtataatcataagcttgacctccatcaattttctttacaagtctctgattcatgttctatggtctctttag
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CAAGTTTGTGGAGAAGACAGCGCCGATTGCTGTCTATACATCTGGGAAAGGTTCATCAGCAGCTGGTCTCACAGCGTCAGTAATTCGGGACGGTAGCTCTgtaag--cttgtcttcc----ctgcaaggatta--ttgtgtttactcaaagttctgtttcctagaactaaaagacttattttccctgtacag--------------------------------------------
upper sequence: GLYMA17G11220.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G450055_T01 (Zea mays), 5'ss of exon 10
GAAGTTTGTTGAAAAGACTGCCCCTATTGCTGTTTATACTTCTGGAAAAGGCTCATCAGCAGCTGGCCTAACCGCTTCTGTAATCCAAGATAGCGGCACTgtaagttcttaccttcctaaactgtttgtattagatcgcaaatttctactatactacttgttgaggtataatcataagcttgacctccatcaattttctttacaagtctctgattcatgttctatggtctctttag
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CAAATTTGTAGAGAAGACTGCCCCTATTGCAGTCTATACATCTGGCAAAGGTTCATCTGCAGCTGGTCTTACAGCATCTGTAACTCGGGATAGTAGCTCGgtaggttg--atttcactgaattgtttgttgt---ttacttaggtttagtttttta------aggctgtaaccattt-ctttttctctacag--------------------------------------------
upper sequence: GLYMA17G11220.1 (Glycine max), 5'ss of exon 9
lower sequence: AT2G07690.2 (Arabidopsis thaliana), 5'ss of exon 9
GAAGTTTGTTGAAAAGACTGCCCCTATTGCTGTTTATACTTCTGGAAAAGGCTCATCAGCAGCTGGCCTAACCGCTTCTGTAATCCAAGATAGCGGCACTgtaagttcttaccttcctaaactgtttgtattagatcgcaaatttctactatactacttgttgaggtataatcataagcttgacctccatcaattttctttacaagtctctgattcatgttctatggtctctttag
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TAAGTTTGTGGAGAAGACGGCTCCAATTGCTGTTTATACATCTGGAAAGGGTTCATCGGCTGCTGGGCTCACAGCTTCGGTGATTCGAGATAGCAGCACTgtatgtcct-atcttc---aagtgtttttctatgat-------ttgtttaaaagtagttgctatgacagattctcag---ttatttatacatatgttcattgcag-------------------------------
upper sequence: GLYMA17G11220.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv11s0149g00130.t01 (Vitis vinifera), 5'ss of exon 9
GAAGTTTGTTGAAAAGACTGCCCCTATTGCTGTTTATACTTCTGGAAAAGGCTCATCAGCAGCTGGCCTAACCGCTTCTGTAATCCAAGATAGCGGCACTgtaagttcttaccttcctaaactgtttgtattag-----atcgcaaatttctactatactacttgttgaggtataatcataagcttgacctccatcaattttctttacaagtctctgattcat---gttctatggtctc---tttag----------------
|||||||||||| |||||||| || | ||||||||||| || || |||||||||||||| ||||| || || ||||| || || | ||||| |||||||||||| || | || | | ||| | || ||| | |||| | || | || || | | || | || | ||| || | ||| | | || ||| | || || || |
GAAGTTTGTTGAGAAGACTGCTCCAGTAGCTGTTTATACATCAGGGAAAGGCTCATCAGCTGCTGGTCTTACAGCTTCGGTGATTCGAGATAATAGCACTgtaagtttttgagattctctatcatgtgtgctgatcctaatgtcaattctctagctctttctttctccagata-agctttgtcaatggagccgatgagtttatttaaattccctcaaaataattaggttatctgacttcaaattcaaactctacatgattcag
upper sequence: GLYMA17G11220.1 (Glycine max), 5'ss of exon 9
lower sequence: PP1S355_49V6.1 (Physcomitrella patens), 5'ss of exon 10
GAAGTTTGTTGAAAAGACTGCCCCTATTGCTGTTTATACTTCTGGAAAAGGCTCATCAGCAGCTGGCCTAACCGCTTCTGTAATCCAAGATAGCGGCACTgtaagt--tcttaccttcctaaactgtttgtattagatcgc-aaatttctactatactacttgttgaggtataatcataagcttgacctccatc---aattttcttta-caagtctctg-----attcatgttcta-tggtctctttag-------------------
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AAAATTTGTTGAGAAGACTGCACCGATTGCTGTTTATACCTCTGGAAAGGGCTCCTCAGCTGCTGGGCTTACTGCATCCGTTATTCGTGACTCTAGCACGgtatgcaattttacatttgccccgtgtttttatctttctaccaaactctcacctgagcatgttttgcttactgaacgttt-ctcgtttcacatagcaaaccatctatggcaagtgttttgaaatatcgaaatgttaatagtcgcttacacctgtgtcctaaatcacagMapped 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|7924143|gb|AW830169.1|AW830169EST: AGATAGCGGCACT CGTGAGTTTTATCTTGAAGGAGGGGCTATGGTCTTGGCCGATGGAGGTGTT
genomic: AGATAGCGGCACTgtaagttctt ... gtctctttagCGTGAGTTTTATCTTGAAGGAGGGGCTATGGTCTTGGCCGATGGAGGTGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAGTTTGTTGAAAAGACTGCCCCTATTGCTGTTTATACTTCTGGAAAAGGCTCATCAGCAGCTGGCCTAACCGCTTCTGTAATCCAAGATAGCGGCACTgtaagttcttaccttcctaaactgtttgtattagatcgcaaatttctactatactacttgttgaggtataatcataagcttgacctccatcaattttctttacaagtctctgattcatgttctatggtctctttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG