Sequence
atgc intronic sequence ATGC exonic sequenceCACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgtaatgtgaaatgcacagattgctgagttatgagggttaacattatgcctattctatttggcatatgccgctagcttttcttctcccatcatcatcactc...
Basic information
species | Glycine max |
transcript | GLYMA13G43680.2 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 5'ss of exon 8
CACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgtaatgtgaaatgcacagattgctgagttatgagggttaacattatgcctattctatttggcat---atgccgctagcttttcttctcccatcatcatcactc
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CACACAACATTTCTGCTGTTTGTTTCCATCCTGAGCTTCCTATAATCATTACTGGATCTGAAGATGGCACAGTTCGCATATGGCATTCGACAACTTACAGgttgctttcacagtttcacttgt--gtttttgcttgttgatgtggactgtttcctagttctcattgtttgctattcaagtgctctctacgaaagaaacaact-
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G000645_T02 (Zea mays), 5'ss of exon 8
CACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgtaatgtga---aatgcacagat-tgctgagttatgagggttaacattatgcctattctatttggcatatgccgctagcttttcttctcccatcatcatcactc
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CACATAATATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTACTGGATCTGAAGATGGTACAGTTCGTATATGGCATTCGACAACTTACAGgtaacatgtttttatttatctctatgtttgcttgtttatgtaagcag-aggtccgttcaatttttctttacaatttggccattatcaattctccatcctga---
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 9
CACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgta---atgtgaaatgca---cagattgctgagttatgagggttaa-cattatgcctat-tctatttggcatatgccgctagcttttcttctcccatcatcatcactc
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CACATAATGTCTCTGCTGTATGTTTCCATCCTGAGCTTCCAATAATAATGACAGGTTCAGAGGATGGAACTGTTCGCCTATGGCACTCCACTACTTACAGgttcttatgctatttctgttctagtttgtggctttgtgacgttttgtctttgtgtttacatcttgatgacgtggtgctcttgtatatgtatttctatcag--------
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 7
CACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgtaatgtgaaatgc----acagattgctgagttatgagggttaacattatgcctattctatttggcatatgccgctagcttttcttctcccatcatcatcactc
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CACATAACATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTACTGGATCCGAAGATGGTACAGTTCGTATATGGCATTCAACAACTTACAGgtaacatgctttttttttgtttatctctatgtt-tgcttgtttatgtaagtagaagtctgtc-agttttcatcgttacaatttggccatttatcaat-tctct-
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G419984_T01 (Zea mays), 5'ss of exon 7
CACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgtaatgtg---aaatgcacagat-tgctgagttatgagggttaacattatgcctattctatttggcatatgccgctagcttttcttctcccatcatcatcactc
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-----------------------------------CTCCCTATAATCATTACTGGATCTGAAGATGGTACAGTTCGTATATGGCATTCGACAACTTACAGgtaacatgtttttatttatctctatgtttgcttgtttatgtaagcag-aggtctattcaatttttctttacaatttggccattatcaattctccatcctga---
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G141587_T01 (Zea mays), 5'ss of exon 8
CACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgtaatgtgaaatgcacagattgctgagttatgagggttaacattatgcctattctatttggcatatgccgctagcttttcttctcccatcatcatcactc-
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CACATAATGTTTCTGCTGTATGTTTCCACCCAGAGCTACCTATAATAATTACTGGTTCAGAGGATGGGACAGTTCGAATGTGGCATTCTACTACCTACAGgtattgctacacatctattttagtacccctggcatgcatgtcgcttgcttatatatgtatgcaagtgt-gctttcattttaaggccaaatctggtagccac
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G124886_T04 (Zea mays), 5'ss of exon 8
CACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgtaatgtgaaatgcacagattg-ctgagttatgagggttaacattatgcctattctatttggcatatgccgctagcttttcttctcccatcatcatcactc---
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CACATAATGTGTCCGCTGTATGTTTCCATCCAGAGCTACCTATAATTATTACTGGTTCAGAGGATGGGACAGTTCGAATGTGGCATTCTACTACCTACAGgtattgctattcatctatttaggccccatttggttgggctgctttgggctcaggctccacactacaa--taccagagtagc--cacaaatcgtggcttatctgg
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 8
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 12
CACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgtaat--gtgaaatgcacagattgctga-gttatgagggttaacattatg---cctattctatttggcatatgccgctagct-----tttcttctcccatcatcatcactc--
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CACACAATGTTTCTGCAGTATCTTTTCATCCAGAGCTACCTATAATTATTACAGGATCCGAGGATGGAACTGTTCGCATATGGCACGCCACCACTTACAGgtaactcgtatgctgtctgcattggagctgctattgattttgtctttaaaaacttccttcaatttttcaaaaatcttcatccaacagttttttacttaatacttgacatctag
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 8
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 8
CACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgtaatgtgaaat-gcacagattgctgagttatgagggttaacatta--tgcctattctat---ttggcatatgccgctagcttttcttctcccatcatcatcactc---------------------------------------------------------------------------
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CACACAATGTATCTGCAGTATGTTTCCATCCAGAGCTTCCAATTATAATCACAGGTTCTGAAGATGGCACCGTTCGCATTTGGCATGCAACCACATACAGgtattataatattaaacagtttttttttgttggacatattatagtaaacgcttcttgtatgccttggc-taaaccatctccactttggcttcattcttgtgcactttttcaccattaccaatttcttttattgtccttccatttgtaatcccaatttcctaatgtctgttttttcttgcag
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 8
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 8
CACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgtaatgtgaaatgcacagattgctgagttatgagggttaacattatgcctattctatttggcatatgccgctagct--------tttcttctcccatcatcatcactc------------------------------------------------------------------------------
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CACACAATGTTTCTGCCGTATGTTTCCATCCAGAGCTTCCAATAATAATCACAGGTTCTGAGGATGGCACTGTTCGCATTTGGCACGCCACTACCTACAGgtatttttaccta-acgttttcctg--tcaaaagacataaca--atgcttacattttttggggttttttaacacttgaatacactttgttcacatgcggttatttcttgtattcattttcaccataggttcgctttctctattttgtcgtttgatttgttatcttcgattctctttctcttttcag
upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 8
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 8
CACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgtaa----tgtgaaatgcacagattgctgagttatgagggttaacattatgcctattctatttggcatatgccgctagcttttcttctcccatcatcatcactc---
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CACACAATGTTTCTGCAGTCTGCTTCCATCCTGAACTTCCCATAATAATAACAGGTTCTGAGGATGGGACTGTTCGAATATGGCATGCTACCACTTATAGgtaagctccatatcatatgcaattttctaa--tatgaagttca----catgttaaactaaccttg-acatcctgctgtttcttttttatttatttttgggctttcaaMapped 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|9987279|gb|BE661387.1|BE661387EST: ACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAG GCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATA
genomic: ACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgtaatgtgaa ... ttgcttgcagGCTTGAGAACACATTAAACTATGGTCTTGAAAGAGTCTGGGCTATTGGATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTACTGGTTCTGAGGATGGCACAGTACGCATATGGCACTCCACAACTTATAGgtaatgtgaaatgcacagattgctgagttatgagggttaacattatgcctattctatttggcatatgccgctagcttttcttctcccatcatcatcactc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG