Sequence
atgc intronic sequence ATGC exonic sequence...agattttctgattattcatctcttgctgtacttacatttaatgttataaattcctcaaattttaacattccatatttttatcatttgacatccgtaacagGTTTTGTTTTTGATGTACCATTACTTTGCTGCATCTGAAATCTACAATGCAATCCGTTTGTTCATTGCTGCATATGTTTGGATGACTGGATTTGGGAACT
Basic information
species | Glycine max |
transcript | GLYMA07G36550.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G36550.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os03g19970.1 (Oryza sativa), 3'ss of exon 6
agattttctgattattcatctcttgc-tgtacttacatttaatgttataaat-tcctcaaattttaacattcca--tatttttatcatttgacatccgtaa--cagGTTTTGTTTTTGATGTACCATTACTTTGCTGCATCTGAAATCTACAATGCAATCCGTTTGTTCATTGCTGCATATGTTTGGATGACTGGATTTGGGAACT
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-----ctcaatgcctcaatagcatacatgtgtggttagtaagtttttcatctatgttcaagtgcatgcatatcacttgttttcagcatt-gatttccctcattcagGTGCTGTTTTTGATGTACCACTACTTCAATGCTAAAGAGATATACAATGCAATTCGTGTGTTCATTGCTGCATATGTCTGGATGACTGGATTTGGTAACT
upper sequence: GLYMA07G36550.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G020721_T01 (Zea mays), 3'ss of exon 6
--agattttctgattattca-tctcttgctgtacttacatttaatgttataaattcctcaaattttaacattccatatttttatcatttgacatccgtaacagGTTTTGTTTTTGATGTACCATTACTTTGCTGCATCTGAAATCTACAATGCAATCCGTTTGTTCATTGCTGCATATGTTTGGATGACTGGATTTGGGAACT
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ggagaatttccttttatagactgtaatatactgggttcaacttctgtcctcctactagcagcctgcaacagtcttcagt---attactttatctaatttccagGTGCTATTCTTGATGTACCATTACTTCAATGCTAAAGAAATCTACAATGCAATCCGTGTGTTCATCGCTGCATATGTCTGGATGACTGGATTTGGCAATT
upper sequence: GLYMA07G36550.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G06550.3 (Arabidopsis thaliana), 3'ss of exon 6
agattttctgattattcatctcttgctgtacttacat-ttaatgttataaattcctcaaattttaacatt-ccatatttttatcatttgacatccgta--acagGTTTTGTTTTTGATGTACCATTACTTTGCTGCATCTGAAATCTACAATGCAATCCGTTTGTTCATTGCTGCATATGTTTGGATGACTGGATTTGGGAACT
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-----------------gtttgtcatttaacttttatgttagtgttttatctgccttttcatttgccgctacctcatcattgttttcttattctggtgttgtagGTCCTTTTCTTGATGTACCACTACTTTGCTGCTGCAGAGTACTATAATGCGATCCGTGTTTTCATTGCTTGCTATGTATGGATGACTGGATTTGGGAATT
upper sequence: GLYMA07G36550.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv05s0077g00620.t01 (Vitis vinifera), 3'ss of exon 6
agattttctgattattc-atctcttgctgtacttacatttaatgttataaattcctcaaattttaacattccatatttttatcatttgacatccgta--acagGTTTTGTTTTTGATGTACCATTACTTTGCTGCATCTGAAATCTACAATGCAATCCGTTTGTTCATTGCTGCATATGTTTGGATGACTGGATTTGGGAACT
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atatgtaggaactatcctagacacttttgttgcca-gctttatattctg--ctttctagatgttcatcatcggtggtctcactctctttcttctatcctacagGTATTATTTTTGATGTATCATTACTTTGCGGCAACAGAAATCTATAATGCCATCCGCCTTTTTATTGCTGCATATGTGTGGATGACTGGATTTGGGAATTMapped 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|298175477|gb|HO015110.1|HO015110EST: TCCTTTACTTAAATAGGCACCAGACTGAAGAATGGAAAGGCTGGATGCAG GTTTTGTTTTTGATGTACCATTACTTTGCTGCATCTGAAATCTACAATGCA
genomic: TCCTTTACTTAAATAGGCACCAGACTGAAGAATGGAAAGGCTGGATGCAGgttggtcact ... tccgtaacagGTTTTGTTTTTGATGTACCATTACTTTGCTGCATCTGAAATCTACAATGCA
EST:
gi|151395938|gb|EV265815.1|EV265815EST: TCCTTTACTTAAATAGGCACCAGACCGAAGAATGGAGAGGCTGGATGCAC GTTTTGTTTTTGATGTACCATTCCTTTGCTGCATCTGAAATCTACA-TGCA
genomic: TCCTTTACTTAAATAGGCACCAGACTGAAGAATGGAAAGGCTGGATGCAGgttggtcact ... tccgtaacagGTTTTGTTTTTGATGTACCATTACTTTGCTGCATCTGAAATCTACAATGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaattcctcaaattttaacattccatatttttatcatttgacatccgtaacagGTTTTGTTTTTGATGTACCATTACTTTGCTGCATCTGAAATCTACAATGCAATCCGTTTGTTCATTGCTGCATATGTTTGGATGACTGGATTTGGGAACT
aaattttaacattcca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agattttctgattattcatctcttgctgtacttacatttaatgttataaattcctcaaattttaacattccatatttttatcatttgacatccgtaacagGTTTTGTTTTTGATGTACCATTACTTTGCTGCATCTGAAATCTACAATGCAATCCGTTTGTTCATTGCTGCATATGTTTGGATGACTGGATTTGGGAACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - -ctcttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - cctcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cattcca