Sequence
atgc intronic sequence ATGC exonic sequencegtacttgttattaaaatgactcttgtcttgatgcttttaaaaaattgtatatgcatgatcatagagttttttagctattctattcttctcccttgtgatatgtgtgcatacatacaatgatgcagTGGATGTAGGGCAGATGCCAATGAAGCTGCTGTAATTCTTCTTCCTTCAAATATTACTGTTTTTACCCTTGACTTCTCGGGGTCAGGCTTATCTGATGGA
Basic information
species | Glycine max |
transcript | GLYMA17G00770.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G00770.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g10440.1 (Oryza sativa), 3'ss of exon 3
gtacttgttattaaaatgactcttgtcttgatgcttttaaaaaattgtatatgcatgatcatagagttttttagctattctattcttctcccttgtgatatgtgtgcatacatacaatgatgcagTGGATGTAGGGCAGATGCCAATGAAGCTGCTGTAATTCTTCTTCCTTCAAATATTACTGTTTTTACCCTTGACTTCTCGGGGTCAGGCTTATCTGATGGA
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------gttatgagctagcatttcctcttaac----tgatgagattcatctcaagcaatcaccgatatcttttggaat------------ctttaacaggcttttgctttgactcaatg---cagTGGATGCCGGGCAGATGCAAATGAAGCTGCTGTTATACTGCTTCCTGCAAATATCACTGTTTTTACACTTGATTTTTCCGGGTCAGGTCTATCAGGTGGA
upper sequence: GLYMA17G00770.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os06g40730.1 (Oryza sativa), 3'ss of exon 3
gtacttgttattaaaatgactcttgtcttgatgcttttaaaaaattgtatatgcatgatca-tagagttttttagctattctattcttctcccttgtgatatgtgtgcatacatacaatgatgcagTGGATGTAGGGCAGATGCCAATGAAGCTGCTGTAATTCTTCTTCCTTCAAATATTACTGTTTTTACCCTTGACTTCTCGGGGTCAGGCTTATCTGATGGA
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----------------------gttagttacagtctctgagttattg-agatgaatcattaattttgttttcttcttgtgcttatcgtattccttacaagctctttctcttaactcaatg---cagTGGATGCAGAGCGGATGCAAATGAAGCAGCTGTCATACTTCTCCCTTCAAATATCACCCTCTTTACACTTGACTTTGCAGGGTCAGGGCTATCAGGTGGA
upper sequence: GLYMA17G00770.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G081642_T03 (Zea mays), 3'ss of exon 3
----------------------------------gtacttgttattaaaatgactcttgtcttgatgcttttaaaaaattgtatatgcatgatcatagagttttt-tagctattctattcttctcccttgtgatatgtgtgcatacatacaat-gatgcagTGGATGTAGGGCAGATGCCAATGAAGCTGCTGTAATTCTTCTTCCTTCAAATATTACTGTTTTTACCCTTGACTTCTCGGGGTCAGGCTTATCTGATGGA
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gtatttaacttttatgctccatgtttgcatttgtttgacgattcatagggtgcttctttatctcaactttttaagacttggt---tgtatgatccagaagctcaaacaatcactggtatgttttggaatattaaacaggattttgctttgactcaatgcagCGGATGCCGAGCAGATGCAAATGAAGCCGCTGTTATACTTCTTCCTTCAAATATCACTGTTTTCACACTTGACTTTTCTGGGTCAGGTCTATCCGGCGGG
upper sequence: GLYMA17G00770.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G081642_T04 (Zea mays), 3'ss of exon 3
gtacttgttattaaaatgactcttgtcttgatgcttttaaaaaattgtatatgcatgatcatagagttttttagctattctattcttctcccttgtgatatgtgtgcatacatacaatgatgcagTGGATGTAGGGCAGATGCCAATGAAGCTGCTGTAATTCTTCTTCCTTCAAATATTACTGTTTTTACCCTTGACTTCTCGGGGTCAGGCTTATCTGATGGA---------------------------
| |||||| ||||| | |||||||| |||||||| ||||| || ||||||||||||||||| |||||||| || |||||||| || |||||||| |||| | ||
---------------------------------------------------------------------------------------------------------------ttgactcaatgcagcggatgccgagcagatgcaaatgaagccgctgttatacttcttccttcaaatatcactgttttcacacttgacttttctgggtcagGTCTATCCGGCGGGGATTATGTCAGTTTGGGTTGGCATGAG
upper sequence: GLYMA17G00770.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G092895_T01 (Zea mays), 3'ss of exon 3
gtacttgttattaaaatgactcttgtcttgatgcttttaaaa--aattgtatatgcatg-atcatagagttttttagctattctattcttctcccttgtgatatgtgtgcatacatacaatgatgcagTGGATGTAGGGCAGATGCCAATGAAGCTGCTGTAATTCTTCTTCCTTCAAATATTACTGTTTTTACCCTTGACTTCTCGGGGTCAGGCTTATCTGATGGA
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------------------------gcctatgagctatcaagatgattcttatttccatttgctctttaccatcttcaatatccaatgtggttcatttaacaagttttttattaatt----taatgcagTGGATGCAGAGCAGATGCAAATGAAGCCGCTGTCATACTTCTTCCTTCAAATATCACCCTTTTTACACTTGACTTTGCGGGATCAGGGCTATCAAGTGGA
upper sequence: GLYMA17G00770.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G17150.2 (Arabidopsis thaliana), 3'ss of exon 3
gtactt-gttattaaaatgactcttgtcttgatgcttttaaaaaattgtatatgcatgatcatagagttttttagctattctattcttctcccttgtgatatgtgtgcatacatacaatgatgcagTGGATGTAGGGCAGATGCCAATGAAGCTGCTGTAATTCTTCTTCCTTCAAATATTACTGTTTTTACCCTTGACTTCTCGGGGTCAGGCTTATCTGATGGA
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gtacatagatacttgcacatctcttttaggaac-----taagaacttgtttatgactagttgaataa----ataagaacttaatccgtttgtttcggaatct-----------tac-------cagTGGATGTAGGGCAGATGCAAATGAGGCAGTTATGGTTCTCCTCCCATCTAACATAACTGTTTTCACCCTTGACTTCTCGGGGTCAGGCTTATCTGAGGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagctattctattcttctcccttgtgatatgtgtgcatacatacaatgatgcagTGGATGTAGGGCAGATGCCAATGAAGCTGCTGTAATTCTTCTTCCTTCAAATATTACTGTTTTTACCCTTGACTTCTCGGGGTCAGGCTTATCTGATGGA
tattctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttgttattaaaatgactcttgtcttgatgcttttaaaaaattgtatatgcatgatcatagagttttttagctattctattcttctcccttgtgatatgtgtgcatacatacaatgatgcagTGGATGTAGGGCAGATGCCAATGAAGCTGCTGTAATTCTTCTTCCTTCAAATATTACTGTTTTTACCCTTGACTTCTCGGGGTCAGGCTTATCTGATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA