Sequence
atgc intronic sequence ATGC exonic sequence...cctagtcaaaaattgtcacctggctatgcatcgaaatcaaattttactttagaaatattatggattaaccaagacaatttaaaattaattgtcgctgtagGCTGGACAGCCTGAACTGATAGCACTTGAGAAAGAACTGAAAGAGGCAATGGTTCCTGCAGGAAAAGCAAGAGAG
Basic information
species | Glycine max |
transcript | GLYMA07G36730.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G36730.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g19690.2 (Oryza sativa), 3'ss of exon 2
cctagtcaaaaattgtcacctggctatgcatcgaaatcaaattttactttagaaatattatggattaaccaagacaatttaaaattaattgtcgctgtagGCTGGACAGCCTGAACTGATAGCACTTGAGAAAGAACTGAAAGAGGCAATGGTTCCTGCAGGAAAAGCAAGAGAG
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----gtaaggcttcattttaaggtctcataattat-tctttttacaatatgtcgctgttatttttatactgttctattgtaaaaaatatactt-ctttagGCTGGACAACCAGAGCTGATTTCTCTTGAGAAGTCACTTAAGGAGGCAATGGTTCCTGCAGGAACTGCAAGAGAG
upper sequence: GLYMA07G36730.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0077g00820.t01 (Vitis vinifera), 3'ss of exon 2
cctagtcaaaaattgtcacctggctatgcatcgaaatcaaattttactttagaaatattatggatt--aaccaagacaatttaaaattaattgtcgctgtagGCTGGACAGCCTGAACTGATAGCACTTGAGAAAGAACTGAAAGAGGCAATGGTTCCTGCAGGAAAAGCAAGAGAG
| | | || | | ||||| | ||| | | | || | || || ||||| ||| | | | || | || || ||||||| || || || ||||||||||| ||||| | |||||||||||| ||||||||||| |||| || ||||||
-atggcaatgaagccaaagaatggaatgcaactttatcttttgagtcggtgcaagtgctactccttttaaccattacattatgtatttg-tcctcactacagGCTGGGCAACCAGAGCTGATAGCACTGGAGAAGGCACTGAAAGAGGCCATGGTTCCTGCTGGAACTGCTAGAGAG
upper sequence: GLYMA07G36730.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0077g00250.t01 (Vitis vinifera), 3'ss of exon 2
cctagtcaaaaattgtcacctggctatgcatcgaaatcaaattttactttagaaatattatggatt--aaccaagacaatttaaaattaattgtcgctgtagGCTGGACAGCCTGAACTGATAGCACTTGAGAAAGAACTGAAAGAGGCAATGGTTCCTGCAGGAAAAGCAAGAGAG
| | | || | | |||| | ||| | | | || | || || ||||| ||| | | || | | || ||||||| || || || ||||||||||| ||||| | |||||||||||| ||||||||||| |||| || ||||||
-atggcaatgaagccaaagaatggagtgcaactttatcttttgagtcggtgcaagtgctactccttttaaccattacataatgtatttgtcta-cactacagGCTGGGCAACCAGAGCTGATAGCACTGGAGAAGGCACTGAAAGAGGCCATGGTTCCTGCTGGAACTGCTAGAGAG
upper sequence: GLYMA07G36730.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0077g00200.t01 (Vitis vinifera), 3'ss of exon 1
cctagtcaaaaattgtcacctggctatgcatcgaaa--tcaaattttactttag---aaatattatggatt--aaccaagacaatttaaaattaattgtcgctgtagGCTGGACAGCCTGAACTGATAGCACTTGAGAAAGAACTGAAAGAGGCAATGGTTCCTGCAGGAAAAGCAAGAGAG
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------atggcaatgatgccaaagaatggagtgcaactttatcttttgagtcggtgcaagtgctactccttttaaccattacattatgtatttgtcta-cactacagGCTGGGCAACCAGAGCTGATAGCACTGGAGAAGGCACTGAAAGAGGCCATGGTTCCTGCTGGAACTGCTAGAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actttagaaatattatggattaaccaagacaatttaaaattaattgtcgctgtagGCTGGACAGCCTGAACTGATAGCACTTGAGAAAGAACTGAAAGAGGCAATGGTTCCTGCAGGAAAAGCAAGAGAG
attaaccaagacaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctagtcaaaaattgtcacctggctatgcatcgaaatcaaattttactttagaaatattatggattaaccaagacaatttaaaattaattgtcgctgtagGCTGGACAGCCTGAACTGATAGCACTTGAGAAAGAACTGAAAGAGGCAATGGTTCCTGCAGGAAAAGCAAGAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - -tgtcacc
- - - - - - - - - - - -ctatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaagac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaattaa