Sequence
atgc intronic sequence ATGC exonic sequence...atcttgagtagcattttgcttgtgcatacaataatatgttaggttcttttagcttggttgttggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAAGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAACCAATGGGAATCACTGCTTTGTATG
Basic information
species | Glycine max |
transcript | GLYMA03G30910.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G30910.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os12g05080.1 (Oryza sativa), 3'ss of exon 1
atcttgagtagcattttgcttgtgcatacaataatatgtt-aggttcttttagcttggttgttggaatgaaatataatgagtgactgtactcttgcaac--agATTTGATGCAAAGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAACCAATGGGAATCACTGCTTTGTATG
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---atacctgtggactgagatgtaccattatcaataaattcaaatgcccatattagcaatgctggtgtctcactctaatttcgtctccttttctgtttcttagATTTAATGCCAGAAATATGCTAGAGAAACTCAGAAACAGAAGAGTTGTATTTGTTGGGGATTCGATTGCAAGAAACCAATGGGAGTCTCTGCTTTGTATG
upper sequence: GLYMA03G30910.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os11g05080.1 (Oryza sativa), 3'ss of exon 1
-----atcttgagtagcattttgcttgtgcatacaataatatgttaggttcttttagcttggttgttggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAAGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAACCAATGGGAATCACTGCTTTGTATG
| | || || ||| | | || ||| | | | || | || || | | | | || | | | | | | | ||||||||||| | |||||| |||| ||| | | |||| || |||| |||||||||||||| ||||| ||||||| |||||||| || |||||||||
cttgtagatcaagaagtattgt---tatgaata-attcacatatccaattaagcattactgat-atcatattctgatttcaccattattttctttgatttcttagATTTGATGCCAGAAATATGCTGGAGAAGTTGAGAAACAAAAGAGTAGTATTTGTTGGTGATTCAATTGGGCGGAACCAGTGGGAATCTCTTCTTTGTATG
upper sequence: GLYMA03G30910.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G025250_T01 (Zea mays), 3'ss of exon 2
-----atcttgagtagcattttgcttgtgcatacaat-aatatgttaggttcttttagcttggttgttggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAAGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAACCAATGGGAATCACTGCTTTGTATG
| || || | || | | || | | | | | || | | ||| || | || | ||| | | || | || ||||||||||| || | ||| |||| |||||||| |||| || | || |||||||||||||| |||||||||||||||||||| || || |||||||||
tttataactgaaggacaatctgaaagatccacatttccactctagcataatcactaatcttt-ttctctgacttggtcatattctttctttgatttgtt-----agATTTGATGCCAAAAGCATGCTGGAGAAGCTACGAAACAAAAGAGTGGTTTTTGTTGGTGATTCAATTGGAAGGAACCAATGGGAGTCTCTACTTTGTATG
upper sequence: GLYMA03G30910.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G004445_T01 (Zea mays), 3'ss of exon 1
---atc-ttgagtagcattttgcttgtgcatacaataatatgttaggtt--cttttagcttggttgttggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAAGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAACCAATGGGAATCACTGCTTTGTATG
|| ||| | || | || | | ||| || | ||| | ||| | || | || | || | || | || ||||||||||| || ||| |||| ||||||||| |||| || | || ||||| |||||||| |||||||||||||||||||| || || ||||| |||
tttataactgaagaccaatctggaagatc-cacattaccactctagcataatcgttaatctttttctctgactcggtcgtattattcctttgatttgtt-----agATTTGATGCCAAAGGCATGCTGGAGAAGCTACGGAACAAAAGAGTGGTTTTTGTCGGTGATTCAATTGGAAGGAACCAATGGGAGTCTCTACTTTGCATG
upper sequence: GLYMA03G30910.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G19160.1 (Arabidopsis thaliana), 3'ss of exon 1
--------------------------------------------------------------atcttgagtagcatt--ttgcttgtgcatacaataatatgttaggttcttttagcttggttgttggaatgaaatataatgagtgactgtactcttgcaa----------cagATTTGATGCAAAGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAACCAATGGGAATCACTGCTTTGTATG
|| ||| | |||| | | | | | || | || | | | | | | ||| | | | || || | | ||| | |||||||||||| ||| |||||||| |||||| || ||||||| ||||||||||| || || || |||||||| ||||||||||| || || |||||||||
gtaaatgtttcattttctctctttgtttgatgttctgggattagaaatgttatgtttaggaaatattgtatggcatgagtagagtaagttaggaggaagaactttagaaccatatgtgttacttttgaattcagttacttaaagcttactcatttttgttatggaatgtatcagATTTGATGCTAAGTTGATGTTGGAGAAGCTAAGGAACAAGCGGCTAGTGTTTGTAGGAGACTCAATTGGAAGAAACCAATGGGAGTCTCTTCTTTGTATG
upper sequence: GLYMA03G30910.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G06080.1 (Arabidopsis thaliana), 3'ss of exon 1
atcttgagtagcattttgcttgtgcatacaataatatgttaggttct-tttagcttggttgt--tggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAAGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAACCAATGGGAATCACTGCTTTGTATG
| || || |||| | || |||| || ||| | | | | || || | ||| | || | | || | |||||||||||||| ||| |||| || || ||||||||||| || ||||||||||| ||||| || ||||| ||||| ||||| || || |||||| |
---tggaatacttgattgcagatatttataatagagaattcagttttgtcttgggaggcagtacttagctgactctattttcctgttttgaaaactgaattagATTTGATGCAAAACTGATGCTGGAGAAACTCCGGGACAAGCGGCTTGTGTTTGTTGGCGATTCAATAGGAAGAAACCAGTGGGAGTCTCTACTTTGTCTA
upper sequence: GLYMA03G30910.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0104g00120.t01 (Vitis vinifera), 3'ss of exon 1
----------atcttgagtagcattttgcttgtgcatacaataatatgttaggttcttttagcttggttgttggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAAGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAACCAATGGGAATCACTGCTTTGTATG
|| || || ||| | | | | |||| | | | | | || ||| | || | | | | | | || | | |||||||||||||||| |||||||| ||||| || || ||| | ||||||||||||||||| |||||||| |||||||||||||| || ||||| |||
ttttttttaaattttttaaagactttaattaggaaaaagaataggaagaaggatgttatt---ttgatcttttc-------ttttttccttaattctattttgaatacagATTTGATGCAAACGTCATGTTGGAGAAGCTGAGGAACCGGCGGGTTGTGTTTGTTGGTGATTCCATTGGAAGAAACCAATGGGAATCCCTTCTTTGCATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttagcttggttgttggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAAGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAACCAATGGGAATCACTGCTTTGTATG
tactctt CT-rich tract
aatgaaatataatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcttgagtagcattttgcttgtgcatacaataatatgttaggttcttttagcttggttgttggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAAGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAACCAATGGGAATCACTGCTTTGTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - tgcttgt
- - - - - - - - - - - -gcataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgactg