Sequence
atgc intronic sequence ATGC exonic sequence...gtctatcaccttgtgtagtaaggatcatgtacttctttgtatcaacagttgatagtgttgtacggataccaatttctgattactaaaacgtgctttgtagGTTGAGAGTAGCTCTGGAGCTGTTAATGATGTGGCAAATACAATTATGCAAAAATTTTGGGACTCAGCTTTTAATCTAGAACCACCGGAAGATTCTGATA
Basic information
species | Glycine max |
transcript | GLYMA08G00560.3 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os11g06930.1 (Oryza sativa), 3'ss of exon 9
gtctatcaccttgtgtagtaaggatcatgtacttctttg--tatcaacagttgatagtgttgtacggataccaatttctgattactaaaacgtgctttgtagGTTGAGAGTAGCTCTGGAGCTGTTAATGATGTGGCAAATACAATTATGCAAAAATTTTGGGACTCAGCTTTTAATCTAGAACCACCGGAAGATTCTGATA
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----gtctctctgcaca--------tgcgtattttttcgcttctcattccttgctttttccttatggtttccgttcatctaacatcattctgtg---tgaagGTTGAAGGAGGTCCTGAGACCACGAATGGTGTGGCAAACACAATAATGCAAAAGTTTTGGGACTCAGCTCTTGCTTTGGAGCCCCCAGATGAGGAATTTG
upper sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G177485_T01 (Zea mays), 3'ss of exon 4
gtctatcaccttgtgtagtaaggatcatgtacttctttgtatcaacagttgatagtgttgtacggataccaatttctgattactaaaacgtgctttgtagGTTGAGAGTAGCTCTGGAGCTGTTAATGATGTGGCAAATACAATTATGCAAAAATTTTGGGACTCAGCTTTTAATCTAGAACCACCGGAAGATTCTGATA---
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-------gtctccctcttcatggcctgtgtgctctctttcttaatccatccttgtaatctta-----gtccatctgaaatgttt----ttccccctgaagGTTGAAGGAGGTCGTGGTGCCACAAATGATGTGGCAAACATAATAATGCAAAAATTCTGGGACTCTGCACTAGAGCCA---CCAGATGAGGATTTTGATAGTC
upper sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 9
gtctatcaccttgtgtagtaaggatcatgtacttctttgtatcaacagttgatagtgttgtacggataccaatttctgattactaaaacgtgctttgtagGTTGAGAGTAGCTCTGGAGCTGTTAATGATGTGGCAAATACAATTATGCAAAAATTTTGGGACTCAGCTTTTAATCTAGAACCACCGGAAGATTCTGATA---
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-------gtctccctcttcatggcctgtgtgctctctttcttaatccatccttgtaatctta-----gtccatctgaaatgttt----ttccccctgaagGTTGAAGGAGGTCCTGGTGGCGCAAATGATGTGGCAAACACAATAATGCAGAAATTCTGGGACTCTGCACTAGAGCCT---CCAGATGAGGATTTTGATAGTC
upper sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 9
---------gtctatcaccttgtgtagtaaggatcatgtacttctttgtatcaacagttgatagtgttgtacggataccaatttctgattactaaaacgtgctttgtagGTTGAGAGTAGCTCTGGAGCTGTTAATGATGTGGCAAATACAATTATGCAAAAATTTTGGGACTCAGCTTTTAATCTAGAACCACCGGAAGATTCTGATA
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catgtcggacactgtcaacttgcacac--attaacaagtgccaaatcatttctgtag--aggagtgtcccacatattctagtaaccagatat----atg-gtttttcagGTTGAAAATAGCTCTGGAGCTGTTAATGAGGTCACAAATACGATAATGCAAAAGTTTTGGGATTCAACACTTGCTCTAGAGCCACCAGATGATTATGACAMapped 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|27427474|gb|CA938994.1|CA938994EST: TAGTGGCTTGCATGGATGTTTTGCAGATAACTCATGCTGCAATCTCCATG GTTGAGAGTAGCTCTGGAGCTGTTAATGATGTGGCAAATACAATTATGCAA
genomic: TAGTGGCTTGCATGGATGTTTTGCAGATAACTCATGCTGCAATCTCCATGgtaaatttca ... tgctttgtagGTTGAGAGTAGCTCTGGAGCTGTTAATGATGTGGCAAATACAATTATGCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagttgatagtgttgtacggataccaatttctgattactaaaacgtgctttgtagGTTGAGAGTAGCTCTGGAGCTGTTAATGATGTGGCAAATACAATTATGCAAAAATTTTGGGACTCAGCTTTTAATCTAGAACCACCGGAAGATTCTGATA
tactaaa putative branch site (score: 1)
attactaaaa 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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gtctatcaccttgtgtagtaaggatcatgtacttctttgtatcaacagttgatagtgttgtacggataccaatttctgattactaaaacgtgctttgtagGTTGAGAGTAGCTCTGGAGCTGTTAATGATGTGGCAAATACAATTATGCAAAAATTTTGGGACTCAGCTTTTAATCTAGAACCACCGGAAGATTCTGATA
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