Sequence
atgc intronic sequence ATGC exonic sequence...aaatatttattgttcttggtcctttgcatgacatgtagtgaatcctaatgtgtgatgtggtcatgcgcctgtattattatgtgtataaatttttatccagTTGGAAGACATGAATATGGACGAGGAATCAGAGAAAGTGGCAGTGGAGTTGGCTGCACAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAATCCGATT
Basic information
species | Glycine max |
transcript | GLYMA03G22370.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G22370.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os11g23790.3 (Oryza sativa), 3'ss of exon 1
-aaat-atttattgttcttggt-cctttgcatgacatgtagtgaatcctaatgtgtgatgtggtcatgcgcctgtattattatgtgtataaatttttatccagTTGGAAGACATGAATATGGACGAGGAATCAGAGAAAGTGGCAGTGGAGTTGGCTGCACAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAATCCGATT
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cagctgaattataaggattgctacctttgagggtcttaaagttgtaaacattgtattgtatattcttga---tatgggactatgtatgctgatgatgctgtagATGGAAGACATGGAGATGGATGGCTCGTTTGAATCATTGGCTGTGGAGTTGATCGCTCAAGGAGTCATTGGGAAAAGAGTTGATGAGATGGAATCTGGCT
upper sequence: GLYMA03G22370.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G079452_T02 (Zea mays), 3'ss of exon 1
---aaatatttattgttcttggtcctttgcatgacatgtagtgaatcctaatgtgtgatgtggtcatgcgcctgtattattatgtgtataaatttttatccagTTGGAAGACATGAATATGGACGAGGAATCAGAGAAAGTGGCAGTGGAGTTGGCTGCACAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAATCCGATT
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agaatataaccgttattcatgtggtctgactaaatgcctctaccttataattgtattac-tgatattgttcttgtatgtgattttctattggtgtttgt--agATGGAGGACATGGAGATGGATGGTGCATTTGAGCAGGTTGCTGTGGAGCTGGTGGCACAAGGAGTTATTGGGAAGAGGGTGGATGAGATGGAGTCAGGTT
upper sequence: GLYMA03G22370.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G48470.1 (Arabidopsis thaliana), 3'ss of exon 1
aaatatttattgttcttggtc-ctttgcatgacatgtagtgaatcctaatgtgtgatgtggtcatgcgcctgtattattatgtg-tataaatttt-tatccagTTGGAAGACATGAATATGGACGAGGAATCAGAGAAAGTGGCAGTGGAGTTGGCTGCACAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAATCCGATT
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---ttttggggcatattgttcactttttaatacatagaatcgttacttgtttattaagggaattattggttccgtaatggcttgatatgtctctgatgtgtagTTGGAAGATATGAAGATGAATGAAGCATCTGAGAATGTTGCTGTAGAATTGGCTGCACAAGGAGTTATAGGGAAAAGGGTTGATGAAATGGAATCAGGGT
upper sequence: GLYMA03G22370.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s0333g00020.t01 (Vitis vinifera), 3'ss of exon 1
----aaatatttattgttcttggtcctttgcatgacatgtagtgaatcctaatgtgtgatgtggtcatgcgcctgtattattatg-tgtataaatttttatccagTTGGAAGACATGAATATGGACGAGGAATCAGAGAAAGTGGCAGTGGAGTTGGCTGCACAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAATCCGATT
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attcaagaacctgttgcttct--tttgttataagttgttta-tacatc--gacatgcaatttgtgtacaagccagtaatcctttgatatgtaagtttgggtacagTTGGAAGATATGAACATGGATGAAGCATCCGAGGAAGTGGCAGTTGAGTTGGCCGCACAAGGAGTCATTGGGAAGAGAGTTGATCAAATGGAGTCGGGGTMapped 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|151404147|gb|EV273957.1|EV273957EST: TCAGAGGAGGGGACCAAGTCATCTCTGTTTTGGAGGAAATTATTACCCTT TTGGAAGACATGAATATGGACGAGGAATCAGAGAAAGTGGCAGTGGAGTTG
genomic: TCAGAGGAGGGGACCAAGTCATCTCTGTTTTGGAGGAAATTATTACCCTTgtatgttact ... ttttatccagTTGGAAGACATGAATATGGACGAGGAATCAGAGAAAGTGGCAGTGGAGTTG
EST:
gi|151406173|gb|EV275988.1|EV275988EST: TCAGAGGAGGGGACCAAGTCATCTCTGTTTTGGAGGAAATTATTACCCTT TTGGAAGACATGAATATGGACGAGGAATCAGAGAAAGTGGCAGTGGAGTTG
genomic: TCAGAGGAGGGGACCAAGTCATCTCTGTTTTGGAGGAAATTATTACCCTTgtatgttact ... ttttatccagTTGGAAGACATGAATATGGACGAGGAATCAGAGAAAGTGGCAGTGGAGTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatgtgtgatgtggtcatgcgcctgtattattatgtgtataaatttttatccagTTGGAAGACATGAATATGGACGAGGAATCAGAGAAAGTGGCAGTGGAGTTGGCTGCACAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAATCCGATT
tcctaat putative branch site (score: 2)
tttttatcc putative PPT
tgtattattatgtgta TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatatttattgttcttggtcctttgcatgacatgtagtgaatcctaatgtgtgatgtggtcatgcgcctgtattattatgtgtataaatttttatccagTTGGAAGACATGAATATGGACGAGGAATCAGAGAAAGTGGCAGTGGAGTTGGCTGCACAAGGAGTTATTGGAAAGAGAGTTGATGAGATGGAATCCGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - -gttcttg
- - - - - - - - - - - - -gcatgac
- - - - - - - - - - - - - - - - -tgtagtg
- - - - - - - - - - - - - - - - - - - - - - - - tgtgtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgcgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgtgt