Sequence
atgc intronic sequence ATGC exonic sequence...gaatgacttgagctttcgttaaaaaggaatatgaatatagcaatgttagttcagtttaattttattttttaatgtatctaaactcttaatggttttgcagAAAATGGAGATACTGCCAGTTAATGATTTGGATATTGCATTGCAAAATTTTGTGAACAAAGATGATAAAATGGCATTTTACTCTTGTGTAAAATACAATA
Basic information
species | Glycine max |
transcript | GLYMA12G34750.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G34750.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os04g54340.1 (Oryza sativa), 3'ss of exon 16
gaatgacttgagctttcgttaaaaaggaatatgaatatagcaatgtt----agttcagtttaattttattttttaatgtatctaaactcttaatggttttgcagAAAATGGAGATACTGCCAGTTAATGATTTGGATATTGCATTGCAAAATTTTGTGAACAAAGATGATAAAATGGCATTTTACTCTTGTGTAAAATACAATA
| | ||| || | || | || | | || | | | | | || | | | || || | | ||| |||||||||||||| || |||||| |||| ||||| ||||||||||| ||||||||| ||| ||||| || ||||| ||||| | ||| | | |||
----gttctatagattctttggatagcttcttacatccttcttttttttaaaaaaaaatattagagtaacaatataagcttcatgacacaaatcttgtttccagAAAATGGAGATTCTTCCAGTTGATGACTTGGACATTGCATTGCATGATTTTGTGAGCAAGGATGACAAGATGGCGTTTTATGCCTGTTTGCAGCGGAATC
upper sequence: GLYMA12G34750.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G106056_T03 (Zea mays), 3'ss of exon 16
gaatgacttgagct-ttcgttaaaaaggaatatgaatatagcaatgttagttcagtttaattttattttttaatgtatc-taaactcttaatggttttgcagAAAATGGAGATACTGCCAGTTAATGATTTGGATATTGCATTGCAAAATTTTGTGAACAAAGATGATAAAATGGCATTTTACTCTTGTGTAAAATACAATA
| | || || || | ||| ||| | | || || | | || | || |||| | | | | || | | || |||||||||||||| || || ||| |||||||||| ||||| ||||| ||||||||||||| ||||| || ||||||||||| || ||| | | ||
--ttttgtagatctgttagataatcttaaatctcttttctctaagcttgttatatgcaaagtgtaacctttacaacagcacatattccttctttggtttcagAAAATGGAGATTCTTCCGGTTGATGATTTGGACATTGCGTTGCATGATTTTGTGAACAAGGATGACAAGATGGCATTTTATTCATGTTTGCAGAGAAACC
upper sequence: GLYMA12G34750.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G54260.1 (Arabidopsis thaliana), 3'ss of exon 16
--------------------------------------------gaatgact-tgagctttcgttaaaaaggaatatgaatatagcaa--tgttagttcagtttaattttattttttaatgtatctaaactcttaatggttttgcagAAAATGGAGATACTGCCAGTTAATGATTTGGATATTGCATTGCAAAATTTTGTGAACAAAGATGATAAAATGGCATTTTACTCTTGTGTAAAATACAATA
|| || | || | | | | |||| | | | | | | | | | | | | | | ||| ||| | ||| | || ||||||||||||||| || |||||||| ||| ||||| |||| | || |||||||||||||| ||||||||| | || || ||||| || || | ||||||
gtacatcctgcaaccttctttccttatgattgtgttattatcgtcaacccctgtagaactttgccacagaatgatatagacttgggtagttaccaaatgggcatgagtacactatgggatg-atc---attctattttcttccgcagAAAATGGAGATCCTTCCAGTTAACGATCTGGATGTTGCTCTTCACAATTTTGTGAACAAGGATGATAAACTAGCCTTCTACTCATGCGTTCAGTACAATC
upper sequence: GLYMA12G34750.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv00s0160g00370.t01 (Vitis vinifera), 3'ss of exon 3
gaatgacttgagctttcgttaaaaaggaatatgaatatagcaatgttagttcagtttaattttattttttaatgtatctaaactcttaatggttt-tgcagAAAATGGAGATACTGCCAGTTAATGATTTGGATATTGCATTGCAAAATTTTGTGAACAAAGATGATAAAATGGCATTTTACTCTTGTGTAAAATACAATA---------
| | || | | | | | ||||| || ||||| | | ||| || | || | | || | || |||| |||||| |||| || ||||| |||||| ||||| |||||||||| |||||||| ||||||||||| |||||| | || || |||||||| |||| |||
---------aaattcgggtgtgataacagaagcagtatagttat-ttagtcttttctttctttcacttctgggtcccttagaatgatattcattgatgcaaaaaatgaagATCCTTCCAGTCAATGATGTGGATCTTGCATTGCACAATTTTGTCAACAAAGATGACAAAATGTCTTTCTATTCTTGTGTTCAATATAATCTGGAAGAGA
upper sequence: GLYMA12G34750.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 15
gaatgacttgagctttcgttaaaaaggaatatgaatatagcaatgttagttcagtttaattttattttttaatgtatctaaactcttaatggttttgcagAAAATGGAGATACTGCCAGTTAATGATTTGGATATTGCATTGCAAAATTTTGTGAACAAAGATGATAAAATGGCATTTTACTCTTGTGTAAAATACAATA
| || | | | | || | | | ||||||| || | | | || ||| | || | | | || | | | |||||||||||||||| || ||||| |||||||||||| |||||||||| |||||||| ||||||||||| |||||||| || || |||||||| |||| |||
ggataagtggcattcaggtgtgacaacggaagcaatatagttatttaatcttttctttctttcacttctgggtccctgagaatgatacttattgatgcagAAAATGGAGATCCTTCCAGTCAATGATTTGGATGTTGCATTGCACAATTTTGTCAACAAAGATGACAAAATGGCTTTCTATTCTTGTGTTCAATATAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagttcagtttaattttattttttaatgtatctaaactcttaatggttttgcagAAAATGGAGATACTGCCAGTTAATGATTTGGATATTGCATTGCAAAATTTTGTGAACAAAGATGATAAAATGGCATTTTACTCTTGTGTAAAATACAATA
tcttaat putative branch site (score: 3)
agtttaattttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaatgacttgagctttcgttaaaaaggaatatgaatatagcaatgttagttcagtttaattttattttttaatgtatctaaactcttaatggttttgcagAAAATGGAGATACTGCCAGTTAATGATTTGGATATTGCATTGCAAAATTTTGTGAACAAAGATGATAAAATGGCATTTTACTCTTGTGTAAAATACAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- -tgacttg
- - - - - - - - - - -aaaaggaa
- - - - - - - - - - - - - - - - - - - - caatgtt