Sequence
atgc intronic sequence ATGC exonic sequencegtacggaacctttttatggagtatttttacacctaaatctaagattttatctgttattttcttcccattgtgtagcgtggtttggttgaagtatcacaactatgacttctaagacttaccattgattctggttttctgagagtttcagATACAGGACTGGTGTGGGCTTGGGGCTATGGAGGTGAAGGGCAGCTTGGTCTGGGTTCCAGAATACGTATGGTTTCCACTCCTCATCTTGTTCCTTGCAT
Basic information
species | Glycine max |
transcript | GLYMA02G41810.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G41810.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g62810.4 (Oryza sativa), 3'ss of exon 4
gtacggaacctttttatggagtatttttacacctaaatctaagattttatctgttattttcttcccattgtgtagcg-tggtttggttgaagtatcacaactatgacttctaagacttaccattgattctggttttctgagagtttcagATACAGGACTGGTGTGGGCTTGGGGCTATGGAGGTGAAGGGCAGCTTGGTCTGGGTTCCAGAATACGTATGGTTTCCACTCCTCATCTTGTTCCTTGCAT
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----------------------------------------------gtagcctacattttgcactaacactatggcactacatttgctgggctaggg-aactttgctgattaaaactaaatgtt---------ttctcgaaagCTTCAGATTTAGGCCAAGTATGGGGTTGGGGCTATGGAGGAGAAGGGCAACTAGGCCTGGGTTCTAGAATCCGGACTGTTTCCTCTCCACATCCTATCCC------
upper sequence: GLYMA02G41810.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os01g62810.3 (Oryza sativa), 3'ss of exon 2
gtacggaacctttttatggagtatttttacacctaaatctaagattttatctgttattttcttcccattgtgtagcg-tggtttggttgaagtatcacaactatgacttctaagacttaccattgattctggttttctgagagtttcagATACAGGACTGGTGTGGGCTTGGGGCTATGGAGGTGAAGGGCAGCTTGGTCTGGGTTCCAGAATACGTATGGTTTCCACTCCTCATCTTGTTCCTTGCAT
|| | ||||| | | | | || | || | || || |||| || ||| ||| | || || || || ||||||| ||| | || |||| ||||||||||||||| |||||||| || || |||||||| ||||| || | |||||| |||| |||| | | || |||||
----------------------------------------------gtagcctacattttgcactaacactatggcactacatttgctgggctaggg-aactttgctgattaaaactaaatgtt---------ttctcgaaagcttcagATTTAGGCCAAGTATGGGGTTGGGGCTATGGAGGAGAAGGGCAACTAGGCCTGGGTTCTAGAATCCGGACTGTTTCCTCTCCACATCCTATCCCGTGCAT
upper sequence: GLYMA02G41810.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 5
gtacggaacctttttatggagtatttttacacctaaatctaagattttatctgttattttcttcccattgtg------tagcgtggtttggt-tgaagtatcac----aactatg--acttcta--------------agacttaccattgattctggttttctgagagtttcagATACAGGACTGGTGTGGGCTTGGGGCTATGGAGGTGAAGGGCAGCTTGGTCTGGGTTCCAGAATACGTATGGTTTCCACTCCTCATCTTGTTCCTTGCAT
| || | || | ||| || ||||| || || ||| || | || | || | ||||| | | | | |||| ||||| || | | ||| | ||||| | ||||| || | | ||| | | |||||||||| |||| |||||||| |||||||||||| ||||| ||||| || ||| |||||||| | ||||||||||| ||| ||||||||| ||| ||||| |
--gtaaatccatgaaatcttggattgttgtccctaagcctcagttttaattcatagttctttttctgttgtggttatgcaacataggctggtactcagtatgactagaagccatggaagttctattttgtaaagcaacaaacttaatgttttctattgttccccca-agtttcagATGTTGGACAGGTGTGGGGTTGGGGCTATGGGGGTGAGGGGCAACTAGGTTTGGGTTCCCGGATACGTATGGTATCCTCTCCTCATCCTGTGCCTTGTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcacaactatgacttctaagacttaccattgattctggttttctgagagtttcagATACAGGACTGGTGTGGGCTTGGGGCTATGGAGGTGAAGGGCAGCTTGGTCTGGGTTCCAGAATACGTATGGTTTCCACTCCTCATCTTGTTCCTTGCAT
attgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacggaacctttttatggagtatttttacacctaaatctaagattttatctgttattttcttcccattgtgtagcgtggtttggttgaagtatcacaactatgacttctaagacttaccattgattctggttttctgagagtttcagATACAGGACTGGTGTGGGCTTGGGGCTATGGAGGTGAAGGGCAGCTTGGTCTGGGTTCCAGAATACGTATGGTTTCCACTCCTCATCTTGTTCCTTGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC