Sequence
atgc intronic sequence ATGC exonic sequencegtcagttctgtcagaatgtgattcttgtcgctgatgattgtgaatgccttatattttgcaacctgtttttgtttgctctcatttatttctgccttttgaattttcttctgtacctaatttgtggcttttctccccagATGACTAGGCTGCTAGACATACTCGAAGATTATTTAATGTTTCGTGGATATCAATATTGTCGCATTGATGGAAATACTGGTGGGGATGATCGAGATGCTT
Basic information
species | Glycine max |
transcript | GLYMA15G10370.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 10
gtcagttctgtcagaatgtgattcttgtcgctgatgattgtgaatgccttatattttgcaacctgtttttgtttgctctcatttatttctgccttttgaattttcttctgtacctaatttgtggcttttctccccagATGACTAGGCTGCTAGACATACTCGAAGATTATTTAATGTTTCGTGGATATCAATATTGTCGCATTGATGGAAATACTGGTGGGGATGATCGAGATGCTT
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-----------------------------gtccacatttttatcttgtgttttttttatatataatgcttttctgcctatgttt---tatgttttcataacatttgtgtatacacaact-gtg----tatcctgcagATGACTAGGCTCTTGGACATCTTGGAAGATTATCTGATGTACAAGGGGTATCAATATTGCCGAATTGATGGGAATACTGGTGGTGAAGATCGTGATGCTT
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 7
---------------------------------gtcagttctgtcagaatgtgattcttgtcgctgatgattgtgaatgccttatattttgcaacctgtttttgtttgctctcattta--tttctgccttttgaattttcttctgtacctaatttgtggcttttctccccagATGACTAGGCTGCTAGACATACTCGAAGATTATTTAATGTTTCGTGGATATCAATATTGTCGCATTGATGGAAATACTGGTGGGGATGATCGAGATGCTT
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gtgtgttttccaatcccatgcagatttgaatgcattatttat-ttagcaagtgtgtgtta--ggagatatcagacaccactctggatggtg-agcatgtgcacagtgcacctcattaaaaacttggttgtcctagaatttttatttgcctgac--atagcaccatcctgcagATGACCAGGCTTTTGGATATCTTGGAAGATTATCTTATGTATAGGGGATATCAGTATTGTCGAATTGATGGAAATACAGGTGGAGAAGATCGTGATGCAT
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 10
gtcagttctgtcagaatgtgattcttgtcgctgatgattgtgaatgccttatattttgcaacctgtttttgtttgctctcatttatttctgccttttgaattttcttctgtacctaatttgtggcttttctcc-ccagATGACTAGGCTGCTAGACATACTCGAAGATTATTTAATGTTTCGTGGATATCAATATTGTCGCATTGATGGAAATACTGGTGGGGATGATCGAGATGCTT
| || | | || | || || | | | || ||| ||| | | || ||| ||| ||| | | || | | | ||| ||| |||||||| ||||| | || || ||||| ||||| |||||| |||||| || || || || || |||||||||||||||||||| || || ||||||||||
---------------------------gtattcattaacgcaaacaaataattgttcctatctttgattccttttttctgagtgatatctttcttggttctttgtgcttattccaacgattttgctcatctgtatcagATGACAAGGCTTTTGGATATTCTCGAGGATTACCTAATGTATCGTGGTTACCAGTACTGCCGTATTGATGGAAATACTGGTGGTGACGAACGAGATGCTT
upper sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 10
gtcagtt-ctgtc-agaatgtgattcttgt--------cgctgatgattgtgaatgccttatattttgca-acctgttt-ttgtttgctctcatttatttctgccttttgaattttcttctgtacctaatttgtggcttttctccc------cagATGACTAGGCTGCTAGACATACTCGAAGATTATTTAATGTTTCGTGGATATCAATATTGTCGCATTGATGGAAATACTGGTGGGGATGATCGAGATGCTT
||||||| ||||| |||| | ||||| | ||||| | | | | ||||| | ||||| || || | | | |||| | || ||| || | | | || | | | || |||||||| ||| |||| ||||| || |||||||| || |||||||| ||||| | |||||||| |||||||||||||| || || || ||||| ||||| |
gtcagttgctgtctggaatcaaaatcttgagttatgcattcagatgactcctgcagaccctttttttgtatgcctgtacattattctataacctcattttcattgtatttaatgttgtatttttgtggatgggggaccttctatttaaaattcagATGACAAGGTTGCTGGACATTCTTGAAGATTACTTGATGTTTCGAGGATACCTGTATTGTCGAATTGATGGAAATACAGGGGGAGAAGATCGTGATGCCTMapped 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|5753528|gb|AI960815.1|AI960815EST: TACTTCCTAAATTGAAAGAGCGCGATTCTAGGGTCCTTATATTTTCACAG ATGACTAGGCTGCTAGACATACTCGAAGATTATTTAATGTTTCGTGGATAT
genomic: TACTTCCTAAATTGAAAGAGCGCGATTCTAGGGTCCTTATATTTTCACAGgtcagttctg ... ttctccccagATGACTAGGCTGCTAGACATACTCGAAGATTATTTAATGTTTCGTGGATAT
EST:
gi|6069767|gb|AW099383.1|AW099383EST: TACTTCCTAAATTGAAAGAGCGCGATTCTAGGGTCCTTATATTTTCACAG ATGACTAGGCTGCTAGACATACTCGAAGATTATTTAATGTTTCGTGGATAT
genomic: TACTTCCTAAATTGAAAGAGCGCGATTCTAGGGTCCTTATATTTTCACAGgtcagttctg ... ttctccccagATGACTAGGCTGCTAGACATACTCGAAGATTATTTAATGTTTCGTGGATAT
EST:
gi|193407727|gb|FK373103.1|FK373103EST: TACTTCCTAAATTGAAAGAGCGCGATTCTAGGGTCCTTATATTTTCACAG ATGACTAGGCTGCTAGACATACTCGAAGATTATTTAATGTTTCGTGGATAT
genomic: TACTTCCTAAATTGAAAGAGCGCGATTCTAGGGTCCTTATATTTTCACAGgtcagttctg ... ttctccccagATGACTAGGCTGCTAGACATACTCGAAGATTATTTAATGTTTCGTGGATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatttctgccttttgaattttcttctgtacctaatttgtggcttttctccccagATGACTAGGCTGCTAGACATACTCGAAGATTATTTAATGTTTCGTGGATATCAATATTGTCGCATTGATGGAAATACTGGTGGGGATGATCGAGATGCTT
acctaat putative branch site (score: 3)
tggcttttctcccc putative PPT
ttttgaattttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagttctgtcagaatgtgattcttgtcgctgatgattgtgaatgccttatattttgcaacctgtttttgtttgctctcatttatttctgccttttgaattttcttctgtacctaatttgtggcttttctccccagATGACTAGGCTGCTAGACATACTCGAAGATTATTTAATGTTTCGTGGATATCAATATTGTCGCATTGATGGAAATACTGGTGGGGATGATCGAGATGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG