Sequence
atgc intronic sequence ATGC exonic sequence...gtatgaatgaaccttatgagcctaaagctgtttgattgattatctgtattatatgctgtttatcaacattttaagtggtagcttcttatcatctgaacagATAGCTTCGCTGGCAATCCGAAGTGGGAATGGGCTTCTCTTGAAAGGTGGCAAAGAAGCTAAGCGGTCAAATGCAATTTTGCACAAA
Basic information
species | Glycine max |
transcript | GLYMA14G07120.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G07120.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g62900.1 (Oryza sativa), 3'ss of exon 10
gtatgaatgaaccttatgagcctaaagctgtttgattgattatctgtattatatgctgtttatcaacattttaagtggtagcttcttatcatctgaacagATAGCTTCGCTGGCAATCCGAAGTGGGAATGGGCTTCTCTTGAAAGGTGGCAAAGAAGCTAAGCGGTCAAATGCAATTTTGCACAAA
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gta-aaatgatttttttagttggaaagaaactgtatcagttaactaca--aagcaacgttatttatcatattaa----------cataacat-tgtacagATTGCATCTTTAGCAATCCGAAGTGGAAATGGTCTTCTCTTGAAAGGAGGAAAAGAAGCTATGAGATCAAACACAATACTGCATAAG
upper sequence: GLYMA14G07120.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G472614_T01 (Zea mays), 3'ss of exon 4
-----gtatgaatgaaccttatgag---cctaaagctgtttga-ttgattatctgtattatatgctgtttatcaacattttaagtggtagcttct-tatcatctgaacagATAGCTTCGCTGGCAATCCGAAGTGGGAATGGGCTTCTCTTGAAAGGTGGCAAAGAAGCTAAGCGGTCAAATGCAATTTTGCACAAA
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gtagttttttattgtaatttaccagttacttttcaccatgtgacttgttcatgcttagtacttag-gcatatttataagctatctttaagcttccatatcattctg-tagATTGCATCTTTAGCGATTCGAAGTGGCAATGGTCTTCTCTTGAAAGGTGGAAAAGAAGCCATGAGATCAAACAAAGTATTGCATAAG
upper sequence: GLYMA14G07120.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G389416_T01 (Zea mays), 3'ss of exon 7
-----gtatgaatgaaccttatgag---cctaaagctgtttga-ttgattatctgtattatatgctgtttatcaacattttaagtggtagctt-cttatcatctgaacagATAGCTTCGCTGGCAATCCGAAGTGGGAATGGGCTTCTCTTGAAAGGTGGCAAAGAAGCTAAGCGGTCAAATGCAATTTTGCACAAA
| | | || | ||| || | | | | ||| ||| | || || || | | ||| | | || | ||||| | |||||| | |||| || || | || || |||||||| ||||| ||||||||||||||||| |||||||| | | | ||||| | | ||||| ||
gtagttttttattgtaatttaccagttacttttcaccatgtgacttgttcatgcttagtacttag-gcatatttataagctatctttaagctttcatatcat-tatgtagATTGCATCTTTAGCGATTCGAAGTGGCAATGGTCTTCTCTTGAAAGGTGGAAAAGAAGCCATGAGATCAAACAAAGTATTGCATAAG
upper sequence: GLYMA14G07120.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G55610.2 (Arabidopsis thaliana), 3'ss of exon 10
gtatgaatgaaccttatgagcctaaagctgtttgattgattatctgtattatatgctgtttatcaacattttaagtggtagcttcttatcatctgaa-cagATAGCTTCGCTGGCAATCCGAAGTGGGAATGGGCTTCTCTTGAAAGGTGGCAAAGAAGCTAAGCGGTCAAATGCAATTTTGCACAAA
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---------------gtatgtcatgtgtcatt--gtcctttatac-tcttagatgtgagttctgatcgctgaacaccatgctctatcaataaataaaacagATAGCTTCGCTTGCAATCCGGAGTGGAAATGGTCTTCTGCTGAAGGGTGGAAAGGAGGCTCGTCGATCAAATGCTATCTTACACAAG
upper sequence: GLYMA14G07120.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv15s0024g00720.t01 (Vitis vinifera), 3'ss of exon 1
gtatgaatgaaccttatgagcctaaagctgtttgattgattatctgtattatatgctgtttatcaacattttaagtggtagcttcttatcatctgaacagATAGCTTCGCTGGCAATCCGAAGTGGGAATGGGCTTCTCTTGAAAGGTGGCAAAGAAGCTAAGCGGTCAAATGCAATTTTGCACAAA--------------
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-------------------------------------------gtgtgcttctaattgttt-ttttttttttttgtctcaactagatgctcta-gtgcagATGGCTACATTAGCAATCCGAAGTGG-AATAGACTTCTCTTGAAAAGTGGAAAAGAGGCCAAGCGATCTAATGCAATCTTGCACAAGGTTATAACTGAAGC
upper sequence: GLYMA14G07120.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv13s0019g02360.t01 (Vitis vinifera), 3'ss of exon 10
gtatgaatgaaccttatgagcctaaagctgtttgattgattatctgtattatatgctgtttatcaacattttaagt-ggtagcttctt-------atcatctgaacagATAGCTTCGCTGGCAATCCGAAGTGGGAATGGGCTTCTCTTGAAAGGTGGCAAAGAAGCTAAGCGGTCAAATGCAATTTTGCACAAA
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-----gagctattacatggaattaaagttgtttgtttcttaat---tgttgtgctattttccttatcattttaagtcaacatcatttttgggggtgtgatttgaacagATAGCTTCATTAGCAATCCGAAGTGGGAATGGACTTCTCTTGAAAGGTGGAAAAGAGGCCAAGCGATCTAATGCAATCTTGCACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtattatatgctgtttatcaacattttaagtggtagcttcttatcatctgaacagATAGCTTCGCTGGCAATCCGAAGTGGGAATGGGCTTCTCTTGAAAGGTGGCAAAGAAGCTAAGCGGTCAAATGCAATTTTGCACAAA
tttatcaacattttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaatgaaccttatgagcctaaagctgtttgattgattatctgtattatatgctgtttatcaacattttaagtggtagcttcttatcatctgaacagATAGCTTCGCTGGCAATCCGAAGTGGGAATGGGCTTCTCTTGAAAGGTGGCAAAGAAGCTAAGCGGTCAAATGCAATTTTGCACAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - -aatgaac
- - - - - - - - - -gcctaaa
- - - - - - - - - - - - - gctgttt
- - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atcaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtggtag