Sequence
atgc intronic sequence ATGC exonic sequencegtatgcttagatattgtcatgaatttcttcaaatacaagattagaaggattttttttaccattatatatatgccttttgaacttccagGTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT
Basic information
species | Glycine max |
transcript | GLYMA08G17450.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os02g07760.1 (Oryza sativa), 3'ss of exon 10
-----gtatgcttagatattgtcatg--aatttc----ttcaaatacaagattagaaggattttttttaccattatatata-tgccttttgaacttccagGTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT
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agtgagtaaggtcatttcactttatgtaaattatatgtttttagtgaggcttttcaaaaaaaaacatttctggtgttcatgctgataagttattttacagGTTTCTTTGGAGCTTGGTGGCAATGCACCTTGCATTGTTTTTGATGATGCAGACATTGATGTTGCCATTAAAGGCAGT
upper sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G128114_T03 (Zea mays), 3'ss of exon 9
gtatgcttagatattgtcatg------aatttcttcaaatacaagattagaa---ggattttttttaccattatatatatgcc---ttttgaacttccagGTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT
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atttttttgaacatagtcttgttttgaaggtttgtatgctctgtcatttcagtctgagaccttttaatgatgatgctcacaaaaaataattattttttagGTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCAGACATTGATGTTGCTGTTAAAGGCAGT
upper sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G119482_T01 (Zea mays), 3'ss of exon 10
---------gtatgcttagatatt---gtcatgaat-ttcttcaaatacaagattagaaggattttttttac-cattatatatatgccttttgaacttccagGTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT
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gttttttgaacatggtcttgttttgaaggtttgcatgctctgtcatttcagtctgagacctagtgatgatgctcaccaaaaaaaaacaat--aatgttgtagGTCTCCTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTCGATGATGCGGACATTGATGTTGCTGTTAAAGGCAGT
upper sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv19s0085g00870.t01 (Vitis vinifera), 3'ss of exon 9
gtatgcttagatattgtcatgaatttcttcaaatacaagattagaaggattttttttaccattatatatatgccttttgaacttccagGTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT
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gtatgcatagat--tatcagaattttccagagaaatgagcctctagaaatcatgtcattaatttccttcaa---tcatgactttctagGTATCTCTTGAACCTGGCGGTAATGCACCTTGCATAGTTTTTGATGACACGGACCTGGGCGTGGCAGTAAAATCAATT
upper sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv19s0085g00880.t01 (Vitis vinifera), 3'ss of exon 10
gtatgcttagatattgtcatgaatttcttcaaatacaagattagaaggattttttttaccattatatatatgccttttgaacttcc-agGTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT
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------gttggcatagt-agaaattgttaaaggaacaagccttcagagatcattat-attgttaattgccttaatcataatttttctagGTATCTCTGGAACTTGGTGGTAATGCACCTTGCATAATCTTTGACGATGCAGACCTGGAGGTGGCAGTAAAAGGGGCT
upper sequence: GLYMA08G17450.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S279_72V6.2 (Physcomitrella patens), 3'ss of exon 10
--------gtatgcttagatattgtcatgaatttcttcaaatacaagattagaaggattttttttaccattatatatatgcc----ttttgaacttccagGTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT
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tgattcagaactacttggttgtagaagaattttgagttccataagagcttatgtttttgtaagttgaaaatactaatgcgtcaaatttatgtggacacagATATCTCTCGAACTCGGTGGAAATGCACCTCTCATCATTTTTAATGATGCTGACATAGAGATTGCTGTTCAAGGAGCGMapped 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|16278230|gb|BI942795.1|BI942795EST: CAGCAGTTGGGAAGAAATTGATGGCTGGTTCAGCTGAAACAGTTAAAAAA GTATCTCTTGAACTCGGTGGCAATGCACCTTGCATTAGTTTT-GATGATGC
genomic: CAGCAGTTGGGAAGAAATTGATGGCTGGTTCAGCTGAAACAGTTAAAAAAgtatgcttag ... gaacttccagGTATCTCTTGAACTCGGTGGCAATGCACCTTGCAT-AGTTTTTGATGATGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacaagattagaaggattttttttaccattatatatatgccttttgaacttccagGTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT
ccttttg CT-rich tract
aaggattttttttacc 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
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gtatgcttagatattgtcatgaatttcttcaaatacaagattagaaggattttttttaccattatatatatgccttttgaacttccagGTATCTCTTGAACTCGGTGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA