Sequence
atgc intronic sequence ATGC exonic sequencegtatgttacatgtatgcttaatgagctcatattttaattatacatgtaacatctttactatgacgttgttacttgttaccattagcatgtattcatatgatgataactatgcaaactggaaatctagtattttttattcacatattttatttttctcttgaaacagATGTCTGATCCACTAACTGCTCTGATGCATGCGGTCCAAGTGATGAATTTACTAAAGACCCTAATATTGAAGACACTTAGAGAACGCGAAGAAACAGCTG
Basic information
species | Glycine max |
transcript | GLYMA03G36630.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G36630.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os07g22580.1 (Oryza sativa), 3'ss of exon 4
gtatgttacatgtatgcttaatgagctcatattttaattatacatgtaacatctttactatgacgttgttacttgttaccattagcatgtattcatatgatgataactatgcaaactggaaatctagtattttttattcacatattttatttttctcttgaaacagATGTCTGATCCACTAACTGCTCTGATGCATGCGGTCCAAGTGATGAATTTACTAAAGACCCTAATATTGAAGACACTTAGAGAACGCGAAGAAACAGCTG
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----------------------------------------------------------------gtaatt-tttcttaccataagaatttttttacgtgatcaattgtatgctgatg------caagtgcgctaagatgagatagttcacttgcatt------cagATGTCAGATCCTCTTACTGCTCTGATGCATGCTGTTCAAGTGATGAATCTTCTCAAGACATTGATTCTCAAGACGCTTAGAGAACGTGAGCATGATGAAA
upper sequence: GLYMA03G36630.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0104g01120.t01 (Vitis vinifera), 3'ss of exon 3
gtatgttacatgtatgcttaatgagctcatattttaattatacatgtaacatctttactatgacgttgttacttgttaccattagcatgtattcatatgatgataactatgcaaactggaaatctagtattttttattcacatattttatttttctcttgaaacagATGTCTGATCCACTAACTGCTCTGATGCATGCGGTCCAAGTGATGAATTTACTAAAGACCCTAATATTGAAGACACTTAGAGAACGCGAAGAAACAGCTG
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----------------------------------------------------------------gttgatattaa--atcttgaaaatttcttgttttagctaatgctttg-gtccatggatttcaataaatagaactc-----cttttttgtttgatttcaccagATGTCTGATCCATTGACCGCTCTGATGCATGCTGTTCAAGTGATGAACTTGCTAAAGACCCTGATCACAAAAACACTAAGGGAACGGGAAGAAAGCCCGG
upper sequence: GLYMA03G36630.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S107_15V6.1 (Physcomitrella patens), 3'ss of exon 5
---------------------gtatgttacatgtatgcttaat---gagctcatatttta-attatac-atgtaacatctttact-atgacgttgttacttgttacca--ttagcatgtattcatatgatgataactatgcaaactggaaatctagtattttttattcacatattttatttttctcttgaaacagATGTCTGATCCACTAACTGCTCTGATGCATGCGGTCCAAGTGATGAATTTACTAAAGACCCTAATATTGAAGACACTTAGAGAACGCGAAGAAACAGCTG-
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gtatagagcacctcttcggtggtctctttcttttgaaactagtttagagctaaaactgtgtagcgtgttgtctcccgtgttttctcatgatctttgcacattatttcagcctcgaaggtcgtttgttgttagttggtgttcgatctgttga-cgaaggtcatctctttg-ataatttgagtttcttgccctgcagATGGTTGATCCGCTAACGGCTCTGATGCATGCCGTTCAAGTGATGAACTTGTTGAAAACTTTGATTCTACGCACATTGAAGGACCGGAAGGCTACT-TTGC
upper sequence: GLYMA03G36630.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S60_256V6.1 (Physcomitrella patens), 3'ss of exon 4
--gta-tgttacatgtatgctt--------aatgagctcat----attttaa--ttatacatgtaacatctttactat-gacgttgtt----acttgttacc------attagcatgtattcatatgatgataactatg---caa--actggaaatctagtattttttattcacatattttatttttctcttgaaacagATGTCTGATCCACTAACTGCTCTGATGCATGCGGTCCAAGTGATGAATTTACTAAAGACCCTAATATTGAAGACACTTAGAGAACGCGAAGAAACAGCTG-
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gtatagtgttgtttctacgcttttcacccagagaagctgatgaccattacaagatcagactcgtagagatttcactacagatgctgtcttcgacgtttcatgtgctgaatttgaacgtaggtattccgtgtttatggtgtttcaattgttgtagaatgtgtaacatttattgacattgcttcattatcctt-----cagATGGCTGATCCACTGACAGCTCTGATGCATGCTGTTCAAGTCATGAACTTGCTCAAAACTCTGATTCTTCGCACACTGAAGGACCGAAAGGCCACT-TTGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaactggaaatctagtattttttattcacatattttatttttctcttgaaacagATGTCTGATCCACTAACTGCTCTGATGCATGCGGTCCAAGTGATGAATTTACTAAAGACCCTAATATTGAAGACACTTAGAGAACGCGAAGAAACAGCTG
tattttatttttctct CT-rich tract
aaatctagtatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttacatgtatgcttaatgagctcatattttaattatacatgtaacatctttactatgacgttgttacttgttaccattagcatgtattcatatgatgataactatgcaaactggaaatctagtattttttattcacatattttatttttctcttgaaacagATGTCTGATCCACTAACTGCTCTGATGCATGCGGTCCAAGTGATGAATTTACTAAAGACCCTAATATTGAAGACACTTAGAGAACGCGAAGAAACAGCTG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG