Sequence
atgc intronic sequence ATGC exonic sequencegttagtatgactcttgaattctgtatttctctctcctactatttatattccttttgtttcatctcttggaagttatacatgtttttcgtgttctggatatacatagttttttgctattattttatataattgttgataaaagtatggaccttttttattccttcgtggatgacagGTGAAAAGTCTAAAGATGGGGTATCTGGTCCAAAGAAGGGAAGTAG
Basic information
species | Glycine max |
transcript | GLYMA08G34030.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G34030.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g08360.1 (Oryza sativa), 3'ss of exon 3
gttagtatgactcttgaattctgtatttctctctcctactatttatattccttttgtttcatctcttggaagttatacatgtttttcgtgttctggatatacatagttttttgctattattttatataattgttgataaaagtatggaccttttttattccttcgtggatgacagGTGAAAAGTCTAAAGATGGGGTATCTGGTCCAAAGAAGGGAAGTAG
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-----------gttagtgatatggtttacattttcatataccttgt-tgtagttggctttactctttgtagattgaaaat------catgatggatatatacattgtttctt-ctattgctccaattaatc------aagagaccgg--cctttttattcattcggcaatggcagGTGGAAAGTCCAAAGATGGGGGGTCTGTTCCAAAGAAGGGCAGTAG
upper sequence: GLYMA08G34030.2 (Glycine max), 3'ss of exon 3
lower sequence: AT5G25060.1 (Arabidopsis thaliana), 3'ss of exon 2
gttagtatgactcttgaattctgtatttctctctcctactatttatattccttttgtttcatctcttggaagttatacatgtttttcgtgttctgg-atatacatagttttttgct---attattttatataattgttgataaaagtatggacctttttt--attccttcgtggatgacagGTGAAAAGTCTAAAGATGGGGTATCTGGTCCAAAGAAGGGAAGTAG
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gttagtct---ttgcaaaggctacacagcttttta--actgtttgt-ttacaattgcttctctctttgtgtgtactttgttctttttgattggtgtcaaatggttagagcaatgctttgattatattgggaacgcattaataagtgtatggaccttttttctatgcgttcgcggatggcagGTGAAAAGTCCAAAGATGGGGGTTCGGTTTCAAAGAAGGGGAGTAG
upper sequence: GLYMA08G34030.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 2
gttagtatgactcttgaattctgtatttctctctcctactatttatattccttt------tgtt-tcatctcttggaagttatacatgtttttcgtgttctggatatacatagttttttgctattattttatataattgttgataaaagtatggaccttttttattccttcgtggatgacagGTGAAAAGTCTAAAGATGGGGTATCTGGTCCAAAGAAGGGAAGTAG
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gttagtatggttaaggaactatgtattttccttgctttcaattattgattttttacaaagtattcttgttatgttttagtcttgtttttgtttcatactatggatatatgaataattttttcattat---ggggatccgttaataaaaatatggaccttttt-attcattcgcaaatggcagGTGAAAAGTCGAAAGATGGGGTATCTGTTCCAAAGAAGGGAAGTAGMapped 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|193396912|gb|FK361938.1|FK361938EST: GTAGGAGGAACAATTAATCCCAATGATAAATTTAAAAGATGATTCTGAGG GTGAAAAGTCTAAAGATGGGGTATCTGGTCCAAAGAAGGGAAGTAG
genomic: G-AGGAGGAACAATTAATCCCAATGATAAATTT-AAAGATGATTCTGAGGgttagtatga ... tggatgacagGTGAAAAGTCTAAAGATGGGGTATCTGGTCCAAAGAAGGGAAGTAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatataattgttgataaaagtatggaccttttttattccttcgtggatgacagGTGAAAAGTCTAAAGATGGGGTATCTGGTCCAAAGAAGGGAAGTAG
tgttgat putative branch site (score: 4)
ccttttttattccttc putative PPT
ataattgttgataaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtatgactcttgaattctgtatttctctctcctactatttatattccttttgtttcatctcttggaagttatacatgtttttcgtgttctggatatacatagttttttgctattattttatataattgttgataaaagtatggaccttttttattccttcgtggatgacagGTGAAAAGTCTAAAGATGGGGTATCTGGTCCAAAGAAGGGAAGTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG