Sequence
atgc intronic sequence ATGC exonic sequence...gtcagtaccatgtttaacagagctggttgtttgatatagtctgtttatctagatttgcttggataaatcattatcttaacattccaatttgcattgccagATGCTTAACTTTTCAAACAATAATCTAAACAACGAAGGAAGGTTGCGGACAGTGCTTGATGTTGGCTGTGGTGTTGCAAGTTTTGGAGCATATCTTCTAT
Basic information
species | Glycine max |
transcript | GLYMA10G32470.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G32470.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os10g33720.1 (Oryza sativa), 3'ss of exon 4
---------gtcagtaccatgtttaac--agagctggttgtttgatatagtctgtttatctagattt---gcttggataaa--tcattatcttaa--cattccaatttgcat-tgccagATGCTTAACTTTTCAAACAATAATCTAAACAACGAAGGAAGGTTGCGGACAGTGCTTGATGTTGGCTGTGGTGTTGCAAGTTTTGGAGCATATCTTCTAT
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gtaagtttgttctttagaatctttcaccaataatttcttatcacaaacatgatacatatttaaatgttgggctttttcaaacttcattattgtgattcatcttttctactatctggcagATGCTAAAGTTCAAAGATAACAATATTAACAATGAGGGAATGCTTCGTACAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTTGGAGGATATCTTCTTT
upper sequence: GLYMA10G32470.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G067764_T02 (Zea mays), 3'ss of exon 4
gtcagtaccatgtttaacagagctggttgtttgatatagtctgtttatctagatttgcttggataaatcattatcttaacattccaatttgcattgccagATGCTTAACTTTTCAAACAATAATCTAAACAACGAAGGAAGGTTGCGGACAGTGCTTGATGTTGGCTGTGGTGTTGCAAGTTTTGGAGCATATCTTCTAT
| | |||| | | ||| | | |||| || || || ||| |||| | | ||| |||||||| || || | || ||| ||||||| || || | | | || ||||| ||||||||||| ||||| ||||| |||||||||| ||||||||| |
---------------------gtaagccttttgtcttgattcttttgt---aagttgccctga-aattctttaatctaacccatctctactgtttggcagATGCTAAATTTCAAGGATAACAATATAAACAATGATGGGATGCTTCGTACAGTTCTTGATGTTGGTTGTGGAGTTGCTAGTTTTGGAGGATATCTTCTTT
upper sequence: GLYMA10G32470.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G23300.1 (Arabidopsis thaliana), 3'ss of exon 4
gtcagtaccatgtttaacagagctggttgtttgatatagtctgtttatctagatttgcttggataaatcattatcttaacattccaatttgcattgccagATGCTTAACTTTTCAAACAATAATCTAAACAACGAAGGAAGGTTGCGGACAGTGCTTGATGTTGGCTGTGGTGTTGCAAGTTTTGGAGCATATCTTCTAT
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----------------gtaaggc-agttactagatcttatgtg---gaatagaggtgtgtgtccatcttcatttactgatactattcatggaaattgcagATGCTTAATTTTCCGAACAATGTTTTGAACAATGGGGGAAGGCTGAGGACATTTCTTGATGTTGGCTGTGGTGTTGCTAGCTTTGGAGGTTATCTTCTTG
upper sequence: GLYMA10G32470.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv05s0049g01180.t01 (Vitis vinifera), 3'ss of exon 4
gtcagtaccatgtttaacagagctggttgtttgatatagtctgtt--tatctagatttgct---tggataaatcattatcttaacattccaatttgcattgccagATGCTTAACTTTTCAAACAATAATCTAAACAACGAAGGAAGGTTGCGGACAGTGCTTGATGTTGGCTGTGGTGTTGCAAGTTTTGGAGCATATCTTCTAT
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----atttcattttagggatttctggttctttggtaaattattttagtattttcttctactgcatggttgaagcaataattctat-ttgtggcttgtactggcagATGCTCAACTTTTCAAACAATAATCTAAACAACGGGGGAAGGATACGAACTGTTTTTGATGTTGGCTGTGGTGTTGCAAGTTTTGGAGCCTATCTTCTTTMapped 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|151395442|gb|EV265319.1|EV265319EST: GGACTCATTTCCATTATGGAGCTGATAAGTACATTGCATCAATTGCAAAT ATGCTTAACTTTTCAAACAATAATCTAAACAACGAAGGAAGGTTGCGGACA
genomic: GGACTCATTTCCATTATGGAGCTGATAAGTACATTGCATCAATTGCAAATgtgagtctgc ... gcattgccagATGCTTAACTTTTCAAACAATAATCTAAACAACGAAGGAAGGTTGCGGACA
EST:
gi|8284424|gb|BE021983.1|BE021983EST: GGACTCATTTCCATTATGGAGCTGATAAGTACATTGCATCAATTGCAGAT ATGCTTAACTGTTCAGACAATAATCTAAACAACGAAGGAAGGTTGCGGACA
genomic: GGACTCATTTCCATTATGGAGCTGATAAGTACATTGCATCAATTGCAAATgtgagtctgc ... gcattgccagATGCTTAACTTTTCAAACAATAATCTAAACAACGAAGGAAGGTTGCGGACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatctagatttgcttggataaatcattatcttaacattccaatttgcattgccagATGCTTAACTTTTCAAACAATAATCTAAACAACGAAGGAAGGTTGCGGACAGTGCTTGATGTTGGCTGTGGTGTTGCAAGTTTTGGAGCATATCTTCTAT
tcttaac putative branch site (score: 2)
ataaatcattatctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtaccatgtttaacagagctggttgtttgatatagtctgtttatctagatttgcttggataaatcattatcttaacattccaatttgcattgccagATGCTTAACTTTTCAAACAATAATCTAAACAACGAAGGAAGGTTGCGGACAGTGCTTGATGTTGGCTGTGGTGTTGCAAGTTTTGGAGCATATCTTCTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - -ccatgtt
- - - - - - - - - - -gctggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cattcca