Sequence
atgc intronic sequence ATGC exonic sequence...tggaattggagttgattctataaaaattaaatctaatccaaacaccctatagagacctggaacctatttagcaacatgatgaactcctcattaattttagGGGTTTGCTAGTGGAAGCCTTGATGAAGATGCAGCTTCTGTGAGACTGTTTGTGGCACGTGGCATGGAGGTTCTTGTAGCTCAATCTTACAGTAAAAATC
Basic information
species | Glycine max |
transcript | GLYMA14G13480.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G13480.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g55420.1 (Oryza sativa), 3'ss of exon 8
tggaattggagttgattctataaaaattaaatctaatccaaacaccctatagagacctggaacctatttagcaacatgatgaactcctcattaattttagGGGTTTGCTAGTGGAAGCCTTGATGAAGATGCAGCTTCTGTGAGACTGTTTGTGGCACGTGGCATGGAGGTTCTTGTAGCTCAATCTTACAGTAAAAATC
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-----gtgaaat--gttctcactttattatttcgttttt---ctctgcatgaaaacaaatatcttactgactagca-aat--atttctc------tgcagGGTTTTGCCAGTGGAAGCCTTGATGAAGATGCATCTTCTGTCAGGCTTTTTGTTCAACGGGGACTGGAAGTGTTTGTTGCGCAGTCTTATAGCAAAAACC
upper sequence: GLYMA14G13480.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM5G836910_T01 (Zea mays), 3'ss of exon 8
tggaattggagttgattctataaaaattaaatctaatccaaacaccctatagagacctggaacctatttagcaacatgatgaactcctcattaattttagGGGTTTGCTAGTGGAAGCCTTGATGAAGATGCAGCTTCTGTGAGACTGTTTGTGGCACGTGGCATGGAGGTTCTTGTAGCTCAATCTTACAGTAAAAATC
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-----gtgaacgtttttgcttgagtaccttgtctcctacgtatg---tatcgcaat-----atctcttccactgactggtaggctttcc-----ttttagGGTTTTGCCAGTGGAAGCCTTGATGAAGATGCATTTTCTGTCAGGCTTTTTGTTAAGCGTGGCATGGAAGTGTTTGTTGCACAATCTTACAGCAAGAACC
upper sequence: GLYMA14G13480.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G31990.4 (Arabidopsis thaliana), 3'ss of exon 9
tggaattggagttgattctataaaaattaaatctaatccaaacaccctatagagacctggaacctatttagcaacatgatgaactcctcattaattttagGGGTTTGCTAGTGGAAGCCTTGATGAAGATGCAGCTTCTGTGAGACTGTTTGTGGCACGTGGCATGGAGGTTCTTGTAGCTCAATCTTACAGTAAAAATC
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----gtatccccctattcctacatttccgaatatcgtgtttccgagaga-agtaagcgaaaccatattatgtaacgctacatgcacct-att--ttccagGGCTTTGCTAGTGGAAGCCTTGATGAAGATGCAGCATCTGTGAGATTATTTGCTGAGCGGGGAATGGAGTTTTTTGTTGCTCAGTCATATAGTAAAAATT
upper sequence: GLYMA14G13480.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv04s0008g06040.t01 (Vitis vinifera), 3'ss of exon 10
-tggaattggagttgattctataaaaattaaatcta-atccaaacaccctatagagacctggaacctatttagcaacatgatgaactcctcattaattttagGGGTTTGCTAGTGGAAGCCTTGATGAAGATGCAGCTTCTGTGAGACTGTTTGTGGCACGTGGCATGGAGGTTCTTGTAGCTCAATCTTACAGTAAAAATC
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ataaggtccgaataggtttgagttaacataattcaatatcacaatatcatgttg-gccttccattggaagattccatacc-tgaactcctaacactttgtagGGATTTGCAAGTGGAAGCCTTGATGCAGATGCGTCATCCGTGAGATTGTTTGCTGCACGTGGTATGGAGCTTCTGGTTGCCCAATCATACAGTAAAAATCMapped 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|192316560|gb|FK006795.1|FK006795EST: ATGTAATTCAAGNNNNNNNCCACATTCCCTTTTTTGATGTTGCTTACCAG GGGCTTGCTAGTGGAAGCCTTGATGAAGATGCAGCTTCTGTGAGACTGTTT
genomic: ATGTAATTCAAGAAAAAAACCACATTCCCTTTTTTGATGTTGCTTACCAGgtaccaatct ... ttaattttagGGGTTTGCTAGTGGAAGCCTTGATGAAGATGCAGCTTCTGTGAGACTGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctatagagacctggaacctatttagcaacatgatgaactcctcattaattttagGGGTTTGCTAGTGGAAGCCTTGATGAAGATGCAGCTTCTGTGAGACTGTTTGTGGCACGTGGCATGGAGGTTCTTGTAGCTCAATCTTACAGTAAAAATC
cattaat putative branch site (score: 3)
ctcctcatt CT-rich tract
tcattaatttta 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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tggaattggagttgattctataaaaattaaatctaatccaaacaccctatagagacctggaacctatttagcaacatgatgaactcctcattaattttagGGGTTTGCTAGTGGAAGCCTTGATGAAGATGCAGCTTCTGTGAGACTGTTTGTGGCACGTGGCATGGAGGTTCTTGTAGCTCAATCTTACAGTAAAAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA