Sequence
atgc intronic sequence ATGC exonic sequenceTACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATGGTATGACATATGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGAGtatgttgcaaacttgtaatttctctcttatttgcaagttgtatgcaactaatatgtctgataataaagaagcacaatgtgaaacttcttttggttttggggtaagaagatgctgtttaaattccgtaattattatttccctcccctcttattttgttacaga
Basic information
species | Glycine max |
transcript | GLYMA18G06770.1 |
intron # | 21 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G06770.1 (Glycine max), 5'ss of exon 21
lower sequence: LOC_Os05g07130.2 (Oryza sativa), 5'ss of exon 19
-TACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATGGTATGACATATGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGAGtatgttgcaaacttgtaatttctctcttatttgcaagttgtatgcaactaatatgtctgataataaagaagcacaatgtgaaacttcttttggttttggggtaagaagatgctgtttaaattccgtaattattatttccctcccctcttattttgttacaga
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ATACAATGGCGTGCTCTTGATGAGATAAACTCTGGGGTGTGTGATGGGATGACGTATGAAGAGATAAAGAAAGTTATGCCCGAGGAATTTGAgtatgtgcta---ttgttatct-----ttgtttacat-ttgtttgggagttctttctttagtagttta----catgatgtgcccatctgctagactgctgattgtcaatttgt--------------------------------------------------
upper sequence: GLYMA18G06770.1 (Glycine max), 5'ss of exon 21
lower sequence: LOC_Os03g18310.2 (Oryza sativa), 5'ss of exon 18
-TACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATGGTATGACATATGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGAGtatgttgcaaacttgt-aatttctctcttatttgcaagttgtatgcaactaatatgtctgataataaagaagcacaatgtgaaacttcttttggttttggggtaagaagatgctgtttaaattccgtaattattatttccctcccctcttattttgttacaga
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ATACAATGGCGTGCACTTGATGAAATAAACGCTGGCATCTGTGATGGGATGACGTATGATGAAATAAAGAAAATTAAACCTGAAGAATATGAgtacg---caaattcattgattttccttttgtttt---gtttttttcattgaagctatcttttgttgcatttgttctttgagtaagcccatgtcctgccaagtaaa----------------------------------------------------------
upper sequence: GLYMA18G06770.1 (Glycine max), 5'ss of exon 21
lower sequence: GRMZM2G021846_T01 (Zea mays), 5'ss of exon 19
-TACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATGGTATGACATATGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGAGtatgtt----gcaaacttgtaatttctctcttatttgca--agttgtatgcaactaatatgtctgataataaagaagcacaatgtgaaact--tcttttggttttggg--gtaagaa----gatgctgtttaaattccgtaattattatttccctcccctcttat-----tttgttacaga---
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ATACAATGGCGTGCTCTTGATGAGATCAATTCTGGAGTGTGTGATGGGATGACTTATGAAGAGATAAAGAAAATCATGCCCGAGGAATTTGAgtacgtataaagaaaattttgctttattgttgtagttgcaccatgtgcatggaatatccgttacttaccattcatatatgaggtgttagaccaatgtttcatttccatgctgtacaaattaggaaaaaacagaaatgaaattaacacaaatccttttggcacttgtgaatgcttgtttcaaccag
upper sequence: GLYMA18G06770.1 (Glycine max), 5'ss of exon 21
lower sequence: GRMZM2G021846_T02 (Zea mays), 5'ss of exon 18
---------TACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATGGTATGACATATGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGAGtatgt----tgcaaacttgtaatttctctcttatttgca--agttgtatgcaactaatatgtctgataataaagaagcacaatgtgaaacttct-tttggttt---tggggtaagaa----gatgctgtttaaattccgtaattattatttccctcccctcttat-----tttgttacaga---
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ATTTGTAGATACAATGGCGTGCTCTTGATGAGATCAATTCTGGAGTGTGTGATGGGATGACTTATGAAGAGATAAAGAAAATCATGCCCGAGGAATTTGAgtacgtataaagaaaattttgctttattgttgtagttgcaccatgtgcatggaatatccgttacttaccattcatatatgaggtgttagaccaatgtttcatttccatgctgtacaaattaggaaaaaacagaaatgaaattaacacaaatccttttggcacttgtgaatgcttgtttcaaccag
upper sequence: GLYMA18G06770.1 (Glycine max), 5'ss of exon 21
lower sequence: GRMZM5G824405_T02 (Zea mays), 5'ss of exon 17
-TACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATGGTATGACATATGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGAGtatgttgcaaacttgtaatttctctcttatttgcaagttgtatgcaactaatatgtctgataataaagaagcacaatgtgaaacttcttttggttttggggtaagaagatgctgtttaaattccgtaattattatttccctcccctcttattttgttacaga
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ATACAATGGCGTGCTCTTGATGAGATCAATGCTGGGGTCTGTGATGGGATGACATACGATGAAATAAAGAAAAGTAAACCTGAAGAATATGAgtacgt---gaattcactgatatcatgacattt------tatat-taaaaaatccccctgatcactctgtcactca----gaattttgttcagctgtgggtgtgtgttggtgct-------------------------------------------------
upper sequence: GLYMA18G06770.1 (Glycine max), 5'ss of exon 21
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 5'ss of exon 19
-TACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATGGTATGACATATGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGAGtatgttgcaaacttgtaatttctctcttatttgcaagttgtatgcaactaatatgtctgataataaagaagcacaatgtgaaacttcttttggttttggggtaagaagatgctgtttaaattccgtaattattatttccctcccctcttattttgttacaga
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ATACAATGGCGTGCACTTGATGAGATAAATGCTGGAGTGTGTGATGGAATGACATATGAAGAGATAAAGAAGAACATGCCTGAGGAATACGAgtatg-----agc-----attttttatttgtttaagaaattttcatgat--gtaatttttcttccatgcatacacatgatgatagcttattagacatacttgtcatattaca---------------------------------------------------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|8669465|gb|BE190572.1|BE190572EST: ATGGTATGACATATGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGAA TCGCGCAAGAAGGATAAGCTTAGGTATCGTTATCCTCGGGGTGAGTCATAC
genomic: ATGGTATGACATATGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGAGtatgttgcaa ... ttgttacagaTCGCGCAAGAAGGATAAGCTTAGGTATCGTTATCCTCGGGGTGAGTCATAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TACAATGGCGTGCACTTGATGAGATAAACGCAGGGGTGTGTGATGGTATGACATATGCAGAAATCAAGAAAAACATGCCAGAGGAGTATGAGtatgttgcaaacttgtaatttctctcttatttgcaagttgtatgcaactaatatgtctgataataaagaagcacaatgtgaaacttcttttggttttggggtaagaagatgctgtttaaattccgtaattattatttccctcccctcttattttgttacaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG