Sequence
atgc intronic sequence ATGC exonic sequence...taactatggcaaacttatttcattcttttctcttgttcggtacattacatcatgtgcgctaacatcttgaattttcttgttctgctgcctgtgtagacagCTGTTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATGCATTCATACAAGATGAATCAGAGCACAA
Basic information
species | Glycine max |
transcript | GLYMA03G30140.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G30140.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G017365_T09 (Zea mays), 3'ss of exon 2
-------taactatggcaaacttatttcattcttttctcttgttcggtacattacatcatgtgcgctaacatcttgaattttcttgttctgctgcctgtgtagacagCTGTTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATGCATTCATACAAGATGAATCAGAGCACAA
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tgccggaaaaaaacaccctgtttgtattacacttttaaccctttctgtccttt---tgctttgtgctaacattttgaccaccaccctatggttctttatgtagACAGCTGTTTCTATTGTTCCTGTCTTTCTCCTTGGCTGTTGAAGCATTACATGCATTTATGCAAGATGAATCGGAGCACAA
upper sequence: GLYMA03G30140.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G017365_T08 (Zea mays), 3'ss of exon 3
---taactatggcaaacttatttcattcttttctcttgttcggtacattacatcatgtgcgctaacatcttgaattttcttgttctgctgcctgtgtagacagCTGTTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATGCATTCATACAAGATGAATCAGAGCACAA
|| | | || | | | ||||| | ||| || | || | | || |||||||| |||| | | | | ||||||||||||||||| ||||| |||| |||||| | || ||||| ||| | |||||||| || ||||||||||| ||||||||
ggaaaaaaacaccctgtttgtattacacttttaaccctttctgtccttt---tgctttgtgctaacattttgaccaccaccctatggttctttatgtagacagCTGTTTCTATTGTTCCTGTCTTTCTCCTTGGCTGTTGAAGCATTACATGCATTTATGCAAGATGAATCGGAGCACAA
upper sequence: GLYMA03G30140.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G12100.1 (Arabidopsis thaliana), 3'ss of exon 3
taactatggcaaacttatttcattcttttctcttgttcggtacattacatcatgtgcgctaacatcttgaattttcttgt-tctgctgcctgtgtagacagCTGTTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATGCATTCATACAAGATGAATCAGAGCACAA
|| | | || || | || | || | | | ||| | | | ||| | |||| || | | | | || |||||||||||||||| ||| |||| |||||||||||| |||| || || || ||||||||||| |||||||||||||||||||| ||
-ccatacaatctatcttttcgttttgcctttcattgtctctgtagtttatctttttggttaatactttgatttgtttaatatttgacatatgtgtagacagCTGTTCCTTATGTTCATGTCATTCTCCTTAGCTGTGGAAGCTCTTCATGCATTTATACAAGATGAATCAGAGCATAA
upper sequence: GLYMA03G30140.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g06550.t01 (Vitis vinifera), 3'ss of exon 3
---taactatggcaaacttatttcattcttttctcttgttcggtacattacatcatgtgcgctaacatcttgaattttcttgttctgctgcctgtgtagacagCTGTTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATGCATTCATACAAGATGAATCAGAGCACAA
| | || ||||| || | || || | || || | | | | ||||||| | ||| || | ||||||||| ||| ||||||||||||||| |||||||||||||||||| | || || || ||||||||||||||||||||||||||||| ||||||||
ttttcatcattatgtgattatt--gttgtcatcatttttcttgttggttgctgcctctagactaacatgt-aaatattttgattctgctgcatgtttagacagCTGTTTCTGTTGTTTATGTCATTCTCCTTGGCTGTGGAAGCACTTCATGCATTCATACAAGATGAATCTGAGCACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacatcatgtgcgctaacatcttgaattttcttgttctgctgcctgtgtagacagCTGTTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATGCATTCATACAAGATGAATCAGAGCACAA
cgctaac putative branch site (score: 2)
ttgaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taactatggcaaacttatttcattcttttctcttgttcggtacattacatcatgtgcgctaacatcttgaattttcttgttctgctgcctgtgtagacagCTGTTTCTTTTGTTTATGTCATTCTCCCTAGCAGTTGAGGCACTTCATGCATTCATACAAGATGAATCAGAGCACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - ttcattc
- - - - - - - - - - - - - - - -cttgttc
- - - - - - - - - - - - - - - - - - - - - - - - - catgtgc