Sequence
atgc intronic sequence ATGC exonic sequencegtaagctgcttttccttacacaaattttcctttgtgaaaatttagtctcttttatttctcctagaaaatgttagtttgattttcttcgtcttgtgacgttaaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATATTCTGGGACAATGACAGTTTGGCTGGTCTATTGGCTCTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
Basic information
species | Glycine max |
transcript | GLYMA07G16510.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G16510.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g38150.2 (Oryza sativa), 3'ss of exon 4
----gtaagctgcttttccttacacaaattttcctt-----tgtgaaaatttagtctct------------tttatttctcctagaaaatgttagtttgatttt---cttcgtcttgtgacgtta-----------------aattattacctt-taagggca-------agaactgtct-gcagGATTCTTCTGGTATATTCTGGGACAATGACAGTTTGGCTGGTCTATTGGCTCTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
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gtatgtaag-tgtgtttcataccatacatctcctggaaaagtatgaaacttcagtttttgcgtggtgctgctctttagctgctacttattgttatactgcttgtatgcctagccctagggccttgtcagtgtatatgcaaatagccatgactttctaaccacactcacctataattcttttacagGATTCATCTGGTATATTCTGGGATAATGACAGTTTAGCAGGACTGTTGGCACTGGAACTGAAAGCTGATCTCCTTATTCTGCTCAGTGATGTGGATGGGT
upper sequence: GLYMA07G16510.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G375504_T01 (Zea mays), 3'ss of exon 4
gtaagctgcttttccttacacaaattttcctt---tgtgaaaatttagt-ctcttttatttct--cctagaaaatgttagtttgattttcttcgtcttgtgacgttaaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATATTCTGGGACAATGACAGTTTGGCTGGTCTATTGGCTCTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
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gtttg-tgttgtaccatgcatgccttcttgataaatgtgatatcatgatactcatgcacctgtaccttagccaatgcagg----agtctgttaaagtctcaatagcattttgtgatgctcaccaacagttcctttttacagGATTCATCTGGTATATTCTGGGATAATGACAGTTTAGCTGGTCTTTTGGCTATTGAACTTAAAGCAGATCTCCTTGTTCTACTAAGTGATGTAGATGGTC
upper sequence: GLYMA07G16510.1 (Glycine max), 3'ss of exon 2
lower sequence: AC203754.4_FGT008 (Zea mays), 3'ss of exon 5
---------------------------------------gtaagctgcttttccttacacaaattttcctttgtgaaaatttagtctcttttatttctcctagaaaatgttagtttgattttcttcgtcttgtgacgttaaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATATTCTGGGACAATGACAGTTTGGCTGGTCTATTGGCTCTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
| ||||| | | | | | ||| | | ||| | ||| | | || | | | | ||| ||| || | | || | | | | | | | | || | | |||||||||| || |||||||| ||||| ||||||||||| || ||||| |||||| | ||||||||||| || || ||||||||| | ||||| || || || |
gtttgtgttgtaccatgcatgacattaaatttcaacaatatttgctgcactgcttgata--aatgtgatatcgtgcta-cttatgcaccttgaccttaaccaatgcatg--agtctgttgattttttaaaagcattttcga--tgtcatactcataaacagtttgtttttgcagGATTCATCGGGTATATTTTGGGATAATGACAGTTTAGCCGGTCTTTTGGCTATAGAACTTAAAGCAGATCTTCTTGTTCTACTCAGTGACGTGGATGGCC
upper sequence: GLYMA07G16510.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G028535_T02 (Zea mays), 3'ss of exon 5
gtaagctgcttttccttacacaaattttcctttgtgaaaatttagtctcttttatttctcctagaaaatgttagtttgattttcttcgtcttgtgacgttaaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATATTCTGGGACAATGACAGTTTGGCTGGTCTATTGGCTCTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
| | || | || | | || | | | | || ||| || | || ||| || | ||| | | | || | | ||| | | | |||||||| ||||||||||||||||| ||||||||| | || | ||| ||||| |||||||| ||||| || ||| | | | |||||||| || || |
---------gtctgttttcttaattgcttctgcacggccgtacaccaaccttccaatctaataacagctgggcccttggttgtgttcctactt---------actactgattgtaataatgaatttaatttacagGATTCATCTGGTATATTCTGGGATAATGACAGTCTAGCAGCTCTGTTGGCAGCAGAACTTAATGCTGATCTTCTTATCATGCTTAGTGATGTGGAAGGAC
upper sequence: GLYMA07G16510.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 5
gtaagctgcttttccttacacaaattttcctttgtgaaaatttagtctcttttatttctcctagaaaatgttagtttgattttcttcgtcttgtgacgttaaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATATTCTGGGACAATGACAGTTTGGCTGGTCTATTGGCTCTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
| | | || | | ||||||| | | | || ||| || | ||| | || | ||| | | | | |||||| | |||||||||||||||||||| || || ||||||||| |||| |||| ||||||||||||| ||||||||||| ||||| | ||||||||||| |||||||
-------------------------------ctattatttatttatttattttattatttttgcac----ttcagttgcttacttatgtcatttgccagatgtatatgttgtctgattatgaaaactgttttcagGATTCTTCTGGTATATTTTGTGATAATGACAGTCTGGCAACTCTACTGGCTCTGGAACTAAAAGCTGACCTTCTTGTCTTGTTGAGTGATGTAGAGGGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcttcgtcttgtgacgttaaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATATTCTGGGACAATGACAGTTTGGCTGGTCTATTGGCTCTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
ttaaattattaccttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctgcttttccttacacaaattttcctttgtgaaaatttagtctcttttatttctcctagaaaatgttagtttgattttcttcgtcttgtgacgttaaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATATTCTGGGACAATGACAGTTTGGCTGGTCTATTGGCTCTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA