Sequence
atgc intronic sequence ATGC exonic sequenceTCCCTCAAGCATGAAGATGCGGAGAATATAGGTTATGTCATTCCAACGCCAGTTATCATGCATTTTATCCAGGATTATGAGAAGAATGGAGGATATACTGgtaatatggtagctacaaactaagatgtagatttcacttttacaagatgctatcagagcatttttagaattgaagttttatgcactgagatctttctttctcaatctgctgttag
Basic information
species | Glycine max |
transcript | GLYMA17G09970.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G09970.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g50880.1 (Oryza sativa), 5'ss of exon 3
TCCCTCAAGCATGAAGATGCGGAGAATATAGGTTATGTCATTCCAACGCCAGTTATCATGCATTTTATCCAGGATTATGAGAAGAATGGAGGATATACTGgtaatatggta-gctacaaactaagatgtagatttcactt--ttacaagatgctatcagagcatttttagaattgaagttttatgcactgagatctttctttctcaatctgctgttag
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TCTCTCAAACATGAAGATGCAGAGAATATAGGTTATGTGATACCCACCCCAGTTATTATGCATTTCATTCAAGACTATGAAAAGTCTGGAGAATATACAGgtaa-atgctatacaacttaattgcatgaatatgccatttacttctattgtatgatcatggcccttcttctttt----cttttagtataattacctctgtttggg-------------
upper sequence: GLYMA17G09970.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G877597_T01 (Zea mays), 5'ss of exon 1
-TCCCTCAAGCATGAAGATGCGGAGAATATAGGTTATGTCATTCCAACGCCAGTTATCATGCATTTTATCCAGGATTATGAGAAGAATGGAGGATATACTGgtaatatggtagctacaaactaagatgtagatttcacttttacaagatgctatcagagcatttttagaattgaagttttatgcactgagatctttctttctcaatctgctgttag
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GTCTCTTAAACATGAAGATGCGGAGAACATAGGTTATGTGATACCGACTCCAGTTATTACACATTTCATTGAGGACTACAAAAATC-TAGAGAATACACAGgtaatatgctcttttctg--taattactgggagtaattgtt----ggttttattagcatgatcatgcatttggg--tccacagtctacaac---tgttacaaaaataatgg----
upper sequence: GLYMA17G09970.1 (Glycine max), 5'ss of exon 3
lower sequence: AC212112.4_FGT002 (Zea mays), 5'ss of exon 3
TCCCTCAAGCATGAAGATGCGGAGAATATAGGTTATGTCATTCCAACGCCAGTTATCATGCATTTTATCCAGGATTATGAGAAGAATGGAGGATATACTGgtaatatggtagctacaaactaagatgtagatttcacttttacaagatgctatcagagcatttttagaattgaagttttatgcactgagatctttctttctcaatctgctgttag
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TCTCTTAAACATGAAGATGCGGAGAACATAGGTTATGTGATACCGACTCCAGTTATTACACATTTCATTGAGGACTACAAAAAATCTGGAGAATACACAGgtaatatgctcttttctg--taattactgggagtaattgtt----ggttttattagcatgatcatgcatttggg--tccgcagtctacaac---tgttacaaaaacaatgg----
upper sequence: GLYMA17G09970.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv17s0000g07900.t01 (Vitis vinifera), 5'ss of exon 3
TCCCTCAAGCATGAAGATGCGGAGAATATAGGTTATGTCATTCCAACGCCAGTTATCATGCATTTTATCCAGGATTATGAGAAGAATGGAGGATATACTGgtaatatggtagctacaaactaagatgtagatttcacttttacaagatgctatcagagcatttttagaattgaagttttatgcactgagatctttctttctcaatctgctgttag
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TCTCTTAAACATGAAGATGCAGAGAATATAGGTTATGTCATACCAACACCAGTCATCAAGCACTTTATCCAAGATTATGAGAAGAATGGAGCATATACTGgtatgtatttgattgtggcttcaact----atttcggttg-ataatgttcttgttggatttttgaacagcttacagtttatctttgtgcataacttccttatgat----------Mapped 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|17519347|gb|BM188389.1|BM188389EST: AGTTATCATGCATTTTATCCAGGATTATGAGAAGAATGGAGGATATACTG GATTCCCTATTCTTGGGGTTGAGTGGCAAAAAATGGAAAATCCTGATCTGC
genomic: AGTTATCATGCATTTTATCCAGGATTATGAGAAGAATGGAGGATATACTGgtaatatggt ... ctgctgttagGATTCCCTATTCTTGGGGTTGAGTGGCAAAAAATGGAAAATCCTGATCTGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCCTCAAGCATGAAGATGCGGAGAATATAGGTTATGTCATTCCAACGCCAGTTATCATGCATTTTATCCAGGATTATGAGAAGAATGGAGGATATACTGgtaatatggtagctacaaactaagatgtagatttcacttttacaagatgctatcagagcatttttagaattgaagttttatgcactgagatctttctttctcaatctgctgttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT