Sequence
atgc intronic sequence ATGC exonic sequenceGGCACAATTAAATGAACATGCCAAGCTTTCTATGCTTAGAAATGCTACCTGGACACTTTCAAACTTCTGCAGGGGCAAGCCACAGCCTCCTTTTGATCAGgtatgaaaatatgtattgcttctcctagttaaccatttcttttcatttcgctatagtattctctgttaatatgatggaatgctgcaattttttttttatt...
Basic information
species | Glycine max |
transcript | GLYMA20G38320.3 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 5
GGCACAATTAAATGAACATGCCAAGCTTTCTATGCTTAGAAATGCTACCTGGACACTTTCAAACTTCTGCAGGGGCAAGCCACAGCCTCCTTTTGATCAGgtatgaaaatatgtattgcttctcctagttaaccatttcttttcatttcgctatagtattctc-tgttaatatgatggaatgctgcaattttttttttatt
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AGCCCAGTTGAATGAGCATGCGAAGCTCTCCATGTTGAGGAATGCCACCTGGACTCTGTCCAACTTTTGCAGGGGAAAGCCACAGCCATCATTTGATCAGgt-cgtagacaag----acttctt-taattg--cttttctgtaacagtggttactaaataaacatgttattct--ttgactgttacag-------------
upper sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv14s0060g01510.t01 (Vitis vinifera), 5'ss of exon 5
GGCACAATTAAATGAACATGCCAAGCTTTCTATGCTTAGAAATGCTACCTGGACACTTTCAAACTTCTGCAGGGGCAAGCCACAGCCTCCTTTTGATCAGgtatgaaaatatgtattgcttctcctagttaaccatttcttttcatttcgcta--tagtattctctgttaatatgatggaatgctgcaattttttttttatt---
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GGCACAGTTGAACGAACATGCAAAGCTGTCTATGCTCAGGAATGCTACCTGGACACTTTCAAATTTCTGTAGGGGCAAGCCACAGCCTCCTTTTGATCAGgtttgc-----tgttttgaatgttctacttaactttgagaaaatgtgatggtagccaatagtatttatctcttcactatgcggctggacttggttttatgctctt
upper sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S63_171V6.1 (Physcomitrella patens), 5'ss of exon 5
GGCACAATTAAATGAACATGCCAAGCTTTCTATGCTTAGAAATGCTACCTGGACACTTTCAAACTTCTGCAGGGGCAAGCCACAGCCTCCTTTTGATCAGgtatgaaaat---------atgtattgcttctcctagttaa--ccatttcttt----------tcatttcgctatagtattctctgttaat-atgatggaatgctgcaatttttt---ttttatt------------------------------------------------------------------------
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CGCTCAGCTTACCGATACTGCGAAGTTGTCAATGCTTCGAAATGCCACCTGGACGCTCTCAAACTTCTGCCGTGGAAAGCCCCAGCCACCTTTTGAGCAGgtgagacgattcccagttgacgggtgctgtctgctggcgaaattctcttctttgtggagcagctcattgtacaacactgtttgttattgaccatcatcgatctgtgttgtttcttgagtttgaatctttcgattcgtatattcacaggttctttgccaaatttcccacattgcagtctaataatttttggtttgcag
upper sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S165_54V6.1 (Physcomitrella patens), 5'ss of exon 5
GGCACAATTAAATGAACATGCCAAGCTTTCTATGCTTAGAAATGCTACCTGGACACTTTCAAACTTCTGCAGGGGCAAGCCACAGCCTCCTTTTGATCAGgtatgaaaatatgtattgcttctcctagttaaccatttcttttcatttcgctatagtattctctgttaatatgatggaat--gctgcaattttttttttatt-
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TGCGCAGCTTACGGAGAACACAAAATTGTCTATGCTTAGAAACGCTACCTGGACTCTCTCCAACTTCTGTCGTGGCAAGCCTCAACCACCTTTTGAGCAGgtatgtga-tgtg-attattacgcttactctattattattattcttattagca-agtgatttcgtttgacagtaagatattcgcttctctcttattttcttccMapped 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|16996647|gb|BM086019.1|BM086019EST: GGACACTTTCAAACTTCTGCAGGGGCAAGCCACAGCCTCCTTTTGATCAG GTTAAACCTGCACTTCCTGCTCTTGCCCGTCTTATCCATTCAAACGATGAA
genomic: GGACACTTTCAAACTTCTGCAGGGGCAAGCCACAGCCTCCTTTTGATCAGgtatgaaaat ... tttccttcagGTTAAACCTGCACTTCCTGCTCTTGCCCGTCTTATCCATTCAAACGATGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCACAATTAAATGAACATGCCAAGCTTTCTATGCTTAGAAATGCTACCTGGACACTTTCAAACTTCTGCAGGGGCAAGCCACAGCCTCCTTTTGATCAGgtatgaaaatatgtattgcttctcctagttaaccatttcttttcatttcgctatagtattctctgttaatatgatggaatgctgcaattttttttttatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG