Sequence
atgc intronic sequence ATGC exonic sequence...taatatgttgtcattgttttctcttttttttttctgtaacctatatatatatatgtgtgtgtgtgtgaatgacacacgtgcatgcatgtgatgtgcgcagTTTGGAAGGAGTTAGAGAAGGAGAACAAGGAGTTCTTCGAGGCATACACGAGGAGCAGAGTAGAGAAAGCTTCGGAGAGAGAGACAAGGCAAAGGATCCA
Basic information
species | Glycine max |
transcript | GLYMA03G33110.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G33110.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g38680.1 (Oryza sativa), 3'ss of exon 2
taatatgttgtcattgttttctcttttttttttctgtaac-----ctatatatata-tatgtgtgtgtgtgtgaatgacacacgtgcatgcatgtgatgtgcgcagTTTGGAAGGAGTTAGAGAAGGAGAACAAGGAGTTCTTCGAGGCATACACGAGGAGCAGAGTAGAGAAAGCTTCGGAGAGAGAGACAAGGCAAAGGATCCA
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---tatattttaatctttgtatggctatgtatcttatgacagaagccggagatgtaatccatttgcattatctaaaaatatattttgatctttgtggcg---gcagTATGGAAGGAGCTGGAGAAGGAGAACAAGGAGTTCTTCGAGACCTACAACAAGGACAGGGCGGAGCGCAACATCGAGGCGGAGACGATGCAGCGGATCCA
upper sequence: GLYMA03G33110.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G108723_T01 (Zea mays), 3'ss of exon 2
----------------------------------------------------------------------------------------------taatatgttgtcattgttttctcttttttttttctgtaacctatatatatatatgtgtgtgtgtgtgaatgacacacgtgcatgcatgtgatgtgcgcagTTTGGAAGGAGTTAGAGAAGGAGAACAAGGAGTTCTTCGAGGCATACACGAGGAGCAGAGTAGAGAAAGCTTCGGAGAGAGAGACAAGGCAAAGGATCCA
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gtaccggccgtactaccgtgcatatatactggacacgcgcacgcgttatgctttccttcccccgttcaaccatttctcgtttaccttccatgcataatatgct-tcaataatcgatcatagattatattgttgttgttctat-tctatcatttcatgtg-gtctgaaaaa-----gcacaccacatgcatgcagTGTGGAAGGAGCTAGAGAAAGAGAACAAGGAGTTCTTCGAGACGTACAACAAGGACCGCGAGGAGCGGAAGGTGGAGGCGGAGACGATGGCGCGGATCGA
upper sequence: GLYMA03G33110.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G370044_T01 (Zea mays), 3'ss of exon 2
------------------------------------------------------------taatatgttgtcattgttttctcttttttttttctg--taacctatatatatatatgt-gtgtgtgtgtgaatgacacacgtgca---tgcatgtgatgtgcgcagTTTGGAAGGAGTTAGAGAAGGAGAACAAGGAGTTCTTCGAGGCATACACGAGGAGC---AGAGTAGAGAAAGCTTCGGAGAGAGAGACAAGGCAAAGGATCCA
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gtaggccgtaggcggcactcttgcaagcaagcgattaatcgagattatttcaagagtagttaagttgtcgtccacgccaaattaaagctactactagtcgactcgatcgtatcgatctcattgacctcttcttggcattattatactatacatgctgctatagcagTGTGGAAGGAGCTGGAGAAGGAGAACAGGGAGTTCTTCGAGACGTACAAGAAGTATCTGGGACAAGAGTCGGCGCTGCAGA-AGAATCCATCCGATGGACA--
upper sequence: GLYMA03G33110.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G02580.1 (Arabidopsis thaliana), 3'ss of exon 2
taatatgttgtcattgttttctcttttttttttctgtaacctatatatatatatgtgtgtgtgtgtgaatgacacacgtgcatgcat--gtgatgtgcgcagTTTGGAAGGAGTTAGAGAAGGAGAACAAGGAGTTCTTCGAGGCATACACGAGGAGCAGAGTAGAGAAAGCTTCGGAGAGAGAGACAAGGCAAAGGATCCA
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---------gtacacatattatagatagatatatggtagtatg-----gtacaatagta-atttatgaaagataagggttggagaattgattaaatttgcagTGTGGAAAGAGCTAGCGAAAGAGAACAAAGAGTTCTTCGAGGCATACGAGAGAAGACGAGAAGAAATACCGACCGAGAAAGAGACAGCTCGAAGAATCCG
upper sequence: GLYMA03G33110.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0040g02650.t01 (Vitis vinifera), 3'ss of exon 2
----------------taatatgttgtcattgttttctcttttttttttctgta-acctatatatatatatgtgtgtgtgtg---------tgaatgacac--acgtgcatgcatgt---gatg-tgc-gcagTTTGGAAGGAGTTAGAGAAGGAGAACAAGGAGTTCTTCGAGGCATACACGAGGAGCAGAGTAGAGAAAGCTTCGGAGAGAGAGACAAGGCAAAGGATCCA
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gtcagcgattaccttctcaaactccataactatatatatatatatatatatatatatatatatatatatatttatacatatgcttgtcctctgcataacacgtatatgcatatatatcttgatgatactgcagTGTGGAAGGAATTGGAGAAAGAGAACAAGGAGTTCTTCGAGTCCTACGCAAAGAGCAGAGAGGCAAGAGGTTCTGATATGGAGACAAGGGAAAATTTCCAMapped 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|22932974|gb|BU550113.1|BU550113EST: GGAAGCTCTTTCCAAACATGCAAATATCAAGCCGGTTATTACCTCCACCG TTTGGAAGGAGTTAGAGAAGGAGAACAAGGAGTTCTTCGAGGCATACACGA
genomic: GGAAGCTCTTTCCAAACATGCAAATATCAAGCCGGTTATTACCTCCACCGgtaaagtcat ... atgtgcgcagTTTGGAAGGAGTTAGAGAAGGAGAACAAGGAGTTCTTCGAGGCATACACGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatatgttgtcattgttttctcttttttttttctgtaacctatatatatatatgtgtgtgtgtgtgaatgacacacgtgcatgcatgtgatgtgcgcagTTTGGAAGGAGTTAGAGAAGGAGAACAAGGAGTTCTTCGAGGCATACACGAGGAGCAGAGTAGAGAAAGCTTCGGAGAGAGAGACAAGGCAAAGGATCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - -tgttgtc
- - - - - - - - - - - - - - - -ttctgta
- - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gacacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgca