Sequence
atgc intronic sequence ATGC exonic sequence...tgttattagggtattaacactaatatgttaatctgttaaagcttaatttgctgatcaatgcatttgttgtttttcttcatttattcataccaatttgcagTGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTT
Basic information
species | Glycine max |
transcript | GLYMA15G07330.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G07330.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g35470.3 (Oryza sativa), 3'ss of exon 2
----tgttattagggtattaacactaatatgttaatctgttaaagcttaatttgctgatcaatgcatttgttgtttttcttcatttattcataccaatttgcagTGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTT
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taaattttttttgtgtatatccttgaaattgcaaaaatatgtttgtatc-ttagttgctcgatttagaggttgctcactt--aacaaatgacacatatt-gcagTGTCATTGTGGAAGCTCTTAAGGTGGATAGTTTGCAGAAGCTTTGTTCATCACTGGAGCCAATTCTTCGTAGAGTT
upper sequence: GLYMA15G07330.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g08120.2 (Oryza sativa), 3'ss of exon 2
tgttattagggtattaacacta-atatgttaatctgttaaagcttaatttgc-tgatcaatgcatttgttgtt-tttcttcatttattcataccaatttgcagTGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTT
|| | | | ||| | | | || ||| | | | | |||| | | | | | ||| | ||| ||| | | | | |||||||| ||||||||||| | |||||||| |||||||||| ||||| ||||||||||| || ||||||||||||||
---ccttgcgtgttcattactgtaaagctcaacatgtgagaaggtgaattgcgtcttttgttcttctgtcatgattttttccgcttcgcctctttctctgcagTGTTATTGTTGAAGCATTAAAGGTGGATAGTCTGCAGAGGCTTTGCTCATCACTGGAACCAATTCTTCGTAGAGTG
upper sequence: GLYMA15G07330.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os04g36660.1 (Oryza sativa), 3'ss of exon 2
tgttattagggta--ttaacactaatatgttaatctg--ttaaagcttaatttgctgatcaatgcatttgttgtttttcttcatttattcataccaatttgcagTGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTT
| | || | || || || | || | || || ||| || | | | |||| || ||| | | | | | |||||||||| ||||| |||||||| || || |||||| | || || |||||||||||||| ||||| ||||| || ||||||
--tgaatatgatacctttgggttactctgcatctttgacttttgttttaccatgttttaatacttctctgttagcttacttaagaaacttgtctc--tttgcagTGTCATTGTAGAAGCCCTCAAAGTAGACAGTTTACAAAAGCTTTGTTCATCACTTGAGCCGATTCTGCGAAGAGTT
upper sequence: GLYMA15G07330.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G113453_T01 (Zea mays), 3'ss of exon 2
-tgttattagggtattaac-actaatatgttaatctgttaaagct-taatttgctgatcaatgcatttgttgtttttcttcatttattcataccaatttgcagTGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTT
|| | | |||| | | || ||| | || | || | | | | || |||| | || ||| | | | | || ||| |||||| ||||| ||||| || ||| |||||||| |||||||||| |||||||| || ||||||||||| || ||||||
aagtaaatttggtagagtttattggtaggttctggtttttgatctaccgctcttcaaactacaaatatgtt-tgttgcttagctaa--cgaaacatttttcagTGTCATTGTGGAAGCTCTCAAGATGGACAGTTTGCAGAAACTCTGTTCATCGCTTGAGCCTATTCTCCGAAGAGTT
upper sequence: GLYMA15G07330.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G018837_T04 (Zea mays), 3'ss of exon 2
--tg-ttattagggtattaacactaatatgttaatctgttaaagcttaatttgctgatcaatgcattt--gttgtttttcttcatttattcataccaatttgcagTGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTT
|| || | || || | ||| | ||||| | || |||| | | |||| ||||| | | | | | | | |||||||| ||||||||||| | |||||||| |||||||||| || || |||||| |||| || ||||||||||||||
cttgcttgcttggcgttttattttaacttattaata----acagaataatcggtgacctatcacattctatttgttgtaaacggtctgtctgt-ctaccatgcagTGTTATTGTTGAAGCGTTAAAGGTGGATAGTCTGCAGAGGCTCTGCTCATCATTGGAACCAATTCTTCGTAGAGTA
upper sequence: GLYMA15G07330.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G451882_T01 (Zea mays), 3'ss of exon 2
--tgttattagggtattaacactaatatgttaatctgttaaagcttaatttgctgatcaatgcatttgttgtttttcttcatttattcataccaatttgcagTGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTT
| | | | || | ||| |||| | |||| || | | |||| | ||| | | || | | || | | |||||||| ||||||||||| | ||| |||| |||||||||| || || ||||||||||| || ||||||||||||||
tggctctcttgcttgtttggcgttttattttaacgtattaataacaaaataatgacctatcacattc-tagttgtaaataatctctctat-ctaccctgcagTGTTATTGTTGAAGCTTTAAAGATGGATAGTCTGCAGAGGCTCTGCTCATCACTGGAACCAATTCTTCGTAGAGTA
upper sequence: GLYMA15G07330.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 1
tgttattagggtattaacactaatatgttaatctgttaaagcttaatttgctgatcaatgcatttgttgtttttcttcatttattcatacc---aatttgcagTGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTT
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-caaacaaaggaatcgaggcagtgggttttttgtattattaattagttccgttttctatgc-cctgttattttgttt-gttgaaatgtacttttgttttgcagTGTAATAGTTGAAGCTCTGAAGGTGGATAGTCTGCAGAAACTTTGCTCATCATTGGAACCTATTCTTCGGAGAGTTMapped 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|213605456|gb|DB966949.1|DB966949EST: GGTTCCGCTGACGAAGATCAACCTCAAAGAAAGCGACCTGCTCTCGCTAG TGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATC
genomic: GGTTCCGCTGACGAAGATCAACCTCAAAGAAAGCGACCTGCTCTCGCTAGgtcgtcgaca ... caatttgcagTGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgctgatcaatgcatttgttgtttttcttcatttattcataccaatttgcagTGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTT
tgctgat putative branch site (score: 3)
tttttcttcatttatt 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
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tgttattagggtattaacactaatatgttaatctgttaaagcttaatttgctgatcaatgcatttgttgtttttcttcatttattcataccaatttgcagTGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG