Sequence
atgc intronic sequence ATGC exonic sequencegtattagtcttatttgtgattttaaaaaatagtgtatattatcgtagtatactggacaaatggaatgatatgcaaattttatgttccaatatgatacagGTAATCCAAGAGTAACTCCTGAAGTGACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAATTTGTATTATTCCCAGATAGAAGATCTTATGTT
Basic information
species | Glycine max |
transcript | GLYMA13G34560.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G34560.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 3'ss of exon 6
gtattagtcttatttgtgattttaaaaaatagtgtatattatcgtagtatactggacaaatggaatgatatgcaaattttatgttccaatatgatacagGTAATCCAAGAGTAACTCCTGAAGTGACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAATTTGTATTATTCCCAGATAGAAGATCTTATGTT
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---------------gtatgttacatctatcatat-catgtttgcaacatagttaattaattgtgaaat-tatggttttaatattgatgtggactacagGAAATCCAAGAGTCACACCAGAGGTTACAAGGGACGTATGCCTGTTAGCTAGAATGATGGCTGCTAACTTATACTATGCACAGATAGAGGATCTGATGTT
upper sequence: GLYMA13G34560.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 3'ss of exon 4
gtattagtcttatttgtgattttaaaaaatagtgtatattatcgtagtatactggacaaatggaatg-atatgcaaattttatgttccaatatgatacagGTAATCCAAGAGTAACTCCTGAAGTGACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAATTTGTATTATTCCCAGATAGAAGATCTTATGTT
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-----------------gtatgcaaaggatggcttttgacttc----tgtatagttcagttcttgtgcatttaataattttgtgcattgcaccaatttagGAAATCCAAGAGTGACACCAGAAGTCACAAGGGATGTATGCTTGCTTGCTAGAATGATGGCTTCAAATTTATACTGCTCGCAAATTGAGGATCTCATGTT
upper sequence: GLYMA13G34560.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G110714_T01 (Zea mays), 3'ss of exon 4
gtat-tagtcttatttgtgattttaaaaaatagtgtatattatcgtagtatactggacaaatg----------gaatgatatgcaaattt---tatgttccaatat--gatacagGTAATCCAAGAGTAACTCCTGAAGTGACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAATTTGTATTATTCCCAGATAGAAGATCTTATGTT
||| ||| || | | | || ||||| ||| | || || | | ||| || ||| || ||||||| | | || | || | ||||| ||||||||||| || || || || ||||||||||| ||||| |||||||||||||||||||||||||||||| || ||||||||||||| || |||||
gtacatagcattctctctcccttatttggatagtatatttgat-gtgctgaatcatgcaactgtagttcacaagaaagaagtgcaaatataactctgaactgatgtccatgacagGGAATCCAAGAGTCACGCCAGAGGTTACAAGGGATGTATGCTTGTTGGCTAGAATGATGGCTGCTAATTTGTATAATGCCCAGATAGAAGACCTGATGTT
upper sequence: GLYMA13G34560.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 4
gtattagtcttatttgtgattttaaaaaatagtgta-tatta-tcgtagtatactggacaaatggaatgatatgcaaattttatgttccaatatgatacagGTAATCCAAGAGTAACTCCTGAAGTGACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAATTTGTATTATTCCCAGATAGAAGATCTTATGTT
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taatttatcaaagttgag-tcagactcattagttgactaccagttatagaaagcaggactctctctcccctggattaacatgcttttgacatgaaatgcagGTAACCCAAGGGTGACTCCTGAGGTCACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAACTTATACTATTCCCAGATAGAGGATCTTATGTTMapped 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|18730061|gb|BM525657.1|BM525657EST: TAATGCTCCCCTTATTCAATTTTCTTCTTGGATGGGGGGTGATCGCGATG GTAATCCAAGAGTAACTCCTGAAGTGACAAGGGATGTTTGCTTATTGGCTA
genomic: TAATGCTCCCCTTATTCAATTTTCTTCTTGGATGGGTGGTGATCGGGATGgtattagtct ... tatgatacagGTAATCCAAGAGTAACTCCTGAAGTGACAAGGGATGTTTGCTTATTGGCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtatactggacaaatggaatgatatgcaaattttatgttccaatatgatacagGTAATCCAAGAGTAACTCCTGAAGTGACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAATTTGTATTATTCCCAGATAGAAGATCTTATGTT
atatgcaaattttat 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 |
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gtattagtcttatttgtgattttaaaaaatagtgtatattatcgtagtatactggacaaatggaatgatatgcaaattttatgttccaatatgatacagGTAATCCAAGAGTAACTCCTGAAGTGACAAGGGATGTTTGCTTATTGGCTAGAATGATGGCTGCTAATTTGTATTATTCCCAGATAGAAGATCTTATGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT