Sequence
atgc intronic sequence ATGC exonic sequence...tgtggtgctaggttttgcattgaagatactcttctgtcaatttgattaaattatattctattaacaaagaatacttttattttctttaaaaaaattacagCCTGAATTGGCAGCATCAACTTTGCAAGAATCCACGGCCAAATCCCGACATAAAAACTCTTTTTGTGGATCACTCATGTGGGCAACCAAATGGTGCTCGA
Basic information
species | Glycine max |
transcript | GLYMA07G03180.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G03180.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0002g08370.t01 (Vitis vinifera), 3'ss of exon 4
tgtggtgctaggttttgcattgaagatactct---tctgtcaatttgattaaattatattctattaacaaagaatacttttattttctttaaaaaaattacagCCTGAATTGGCAGCATCAACTTTGCAAGAATCCACGGCCAAATCCCGACATAAAAACTCTTTTTGTGGATCACTCATGTGGGCAACCAAATGGTGCTCGA
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--tactactcttcatcagcgtggagtaactttgattcacttcatacaattcagtcacatttagtgggttaaaagagaattgattttcta-atacatgctgcagCTTGAATTGGCAACATCAACTCTGTAAAAATCCAAGGCCAAATCCAGATATAAAAACTCTTTTTGTAGACCATACATGTGGACAACCAAATGGTGCACGG
upper sequence: GLYMA07G03180.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ36405 (Selaginella moellendorffii), 3'ss of exon 8
tgtggtgctaggttttgcattgaagatactcttctgtcaatttgattaaattatattctattaacaaagaatacttttattttctttaaaaaaattacagCCTGAATTGGCAGCATCAACTTTGCAAGAATCCACGGCCAAATCCCGACATAAAAACTCTTTTTGTGGATCACTCATGTGGGCAACCAAATGGTGCTCGA
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-------------------------gtgcgtccctgcttttccagctac-ttctgtgctgatag-aagaaatacatttctttttttctttt--ttcccagCCTCAATTGGCAACATCAGCTTTGCAAGAATCCTAGGCCCAACCCAGATATCAAAACTCTGTTTGTAGATCATACCTGTAGCGCGCCGAATGGAGCCCGC
upper sequence: GLYMA07G03180.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ30926 (Selaginella moellendorffii), 3'ss of exon 4
tgtggtgctaggttttgcattgaagatactcttctgtcaatttgattaaattatattctattaacaaagaatacttttattttctttaaaaaaattac---agCCTGAATTGGCAGCATCAACTTTGCAAGAATCCACGGCCAAATCCCGACATAAAAACTCTTTTTGTGGATCACTCATGTGGGCAACCAAATGGTGCTCGA
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------------------------------------------------gttggcacttttttgg-------ttcatttatcccttctaaatgtgctgctgcagTCTGAATTGGCAACATCAATTATGTAAAAATCCTCGGCCCAATCCCGACATCAAAACTTTATTTATCGACCACAGTTGTGGTCCTCCGAACGGAGCGCGT
upper sequence: GLYMA07G03180.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ17248 (Selaginella moellendorffii), 3'ss of exon 4
tgtggtgctaggttttgcattgaagatactcttctgtcaatttgattaaattatattctattaacaaagaatacttttattttctttaaaaaaattac---agCCTGAATTGGCAGCATCAACTTTGCAAGAATCCACGGCCAAATCCCGACATAAAAACTCTTTTTGTGGATCACTCATGTGGGCAACCAAATGGTGCTCGA
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------------------------------------------------gttggcacttttttgg-------ttcatttatcccttctaaatgtgctgctgcagTCTGAATTGGCAACATCAATTATGTAAAAATCCTCGGCCCAATCCCGACATCAAAACTTTATTTATCGATCACAGTTGTGGTCCTCCGAACGGAGCGCGT
upper sequence: GLYMA07G03180.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ32018 (Selaginella moellendorffii), 3'ss of exon 4
tgtggtgctaggttttgcattgaagatactcttctgtcaatttgattaaattatattctattaacaaagaatacttttattttctttaaaaaaattacagCCTGAATTGGCAGCATCAACTTTGCAAGAATCCACGGCCAAATCCCGACATAAAAACTCTTTTTGTGGATCACTCATGTGGGCAACCAAATGGTGCTCGA
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-------------------------gtgcgtacctgcttttccagctac-ttctgtgctgatag-aagaaatgcatttctttttttctttttttgtccagCCTCAATTGGCAACATCAGCTTTGCAAGAATCCTAGGCCCAACCCAGATATCAAAACTCTGTTTGTAGATCATACCTGTGGCGCGCCGAATGGAGCCCGC
upper sequence: GLYMA07G03180.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ37833 (Selaginella moellendorffii), 3'ss of exon 4
tgtggtgctaggttttgcattgaagatactcttctgtcaatttgattaaattatattctattaacaaagaatacttttattttctttaaaaaaattacagCCTGAATTGGCAGCATCAACTTTGCAAGAATCCACGGCCAAATCCCGACATAAAAACTCTTTTTGTGGATCACTCATGTGGGCAACCAAATGGTGCTCGA
| | ||| | || || | | || || || ||| | ||| ||| || | || |||||| |||||||| ||||| |||||||||||||| |||| || || || || |||||||| ||||| ||||| | ||||| || ||||| || ||
-------------------------gtgcgtacctgcttttccagctac-ttctgtgctgatag-aagaaatgcatttctttgttt--atttttttccagCCTCAATTGGCAACATCAGCTTTGCAAGAATCCTAGGCCCAACCCAGATATCAAAACTCTGTTTGTAGATCATACCTGTGGCGCGCCGAATGGAGCCCGC
upper sequence: GLYMA07G03180.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ35798 (Selaginella moellendorffii), 3'ss of exon 4
tgtggtgctaggttttgcattgaagatactcttctgtcaatttgattaaattatattctattaacaaagaatacttttattttctttaaaaaaattacagCCTGAATTGGCAGCATCAACTTTGCAAGAATCCACGGCCAAATCCCGACATAAAAACTCTTTTTGTGGATCACTCATGTGGGCAACCAAATGGTGCTCGA
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-------------------------gtgcgtccctgcttttccagctac-ttctgtgctgatag-aagaaatacatttcgtttttttcttttt-tcccagCCTCAATTGGCAACATCAGCTTTGCAAGAATCCTAGGCCCAACCCAGATATCAAAACTCTGTTTGTAGATCATACCTGTGGCGCGCCGAATGGAGCCCGCMapped 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|207797655|gb|GD771467.1|GD771467EST: CAATTTCCCAACCTTAAAAACTCAAGGTTACGGACTCTCATCAATCAAAG CCTGAATTGGCAGCATCAACTTTGACAAAGAATCCACGGCCAA
genomic: CAATTTCCCAACCTTAAAAACTCAAGGTTACGGACTCTCATCAATCAAAGgtaatgtcca ... aaaattacagCCTGAATTGGCAGCATCAACTTTG-CAA-GAATCCACGGCCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaattatattctattaacaaagaatacttttattttctttaaaaaaattacagCCTGAATTGGCAGCATCAACTTTGCAAGAATCCACGGCCAAATCCCGACATAAAAACTCTTTTTGTGGATCACTCATGTGGGCAACCAAATGGTGCTCGA
tattaac putative branch site (score: 1)
tattaacaaagaatac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtggtgctaggttttgcattgaagatactcttctgtcaatttgattaaattatattctattaacaaagaatacttttattttctttaaaaaaattacagCCTGAATTGGCAGCATCAACTTTGCAAGAATCCACGGCCAAATCCCGACATAAAAACTCTTTTTGTGGATCACTCATGTGGGCAACCAAATGGTGCTCGA
tgtggtg
- - - - - - - -tgcattg
- - - - - - - - - - - - - - - -ttctgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaaagaa