Sequence
atgc intronic sequence ATGC exonic sequence...aatgactcctcactttaataatctatggggtattgttggtggatccgtgaagcctttaacttgatttataaataattgaaacctggcttctgaggtgtagGTTAGCACTACTTTGGCTGCTGCTCAAGCACGACTATGGAATGTGAGGGAAGAGAGAGACCAGTTTGAGGAAGCAAACAATCAGATAGTTGAACACCTGA
Basic information
| species | Glycine max |
| transcript | GLYMA10G43840.1 |
| intron # | 11 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G43840.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os05g06980.1 (Oryza sativa), 3'ss of exon 11
aatgactcctcactttaataatctatggggtattgttggtggatccgtgaagcctttaacttgatttataaataattg--aaacctggcttctgaggtgtagGTTAGCACTACTTTGGCTGCTGCTCAAGCACGACTATGGAATGTGAGGGAAGAGAGAGACCAGTTTGAGGAAGCAAACAATCAGATAGTTGAACACCTGA
||| ||||| || | ||||| | ||| | | | | | | |||| |||| || ||| |||| | || |||| | | | | ||||||| | ||| || ||| ||||||||||| ||||| ||||| |||||||||||||| || | | | |
ctggacacctcatacta-tgttctatttga-atttagaataccgttttcacgacagttgtttgaattatgttctttttataaaaagtatttctcaactgcagGTCAATATATCACTAAATGCTGCTGCTGGACGCCTCAAGAAAACCAGGGAAGAGAGGGACCAATTTGATGAAGCAAACAATCAAATTATATTTAAATTAA
upper sequence: GLYMA10G43840.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G102196_T02 (Zea mays), 3'ss of exon 7
aatgactcctcactttaata-atctatggggtatt-------gttggtggatccg--tgaagcct-ttaacttgatttataaataattgaaacctggcttctgaggtgtagGTTAGCACTACTTTGGCTGCTGCTCAAGCACGACTATGGAATGTGAGGGAAGAGAGAGACCAGTTTGAGGAAGCAAACAATCAGATAGTTGAACACCTGA-
||| | | | | |||| || ||| ||| || | | || ||| || |||| | | | || || || | ||| | |||| | || | | || ||||||| |||||| | | || |||||||| ||||||||| | ||||||||||||||||| | || | |
----gtgccttatcctgagacatctgcggaagattttattttcttgatgttttctcctgtctcctattgttctgatcttgatttgttttcaa--tgtttcatgatgaacagGTCAACATTTCACTGAATGCTGCTATTTGTCGACTAAAGCAGACAAGAGAAGAGAGGGACCAGTTTCATGAAGCAAACAATCAGATGAT-ATTTACTTTAC
upper sequence: GLYMA10G43840.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G030235_T01 (Zea mays), 3'ss of exon 11
aatgactcctcactttaat----aatct-atggggtattgttggtggatccgtgaagcctttaacttgatttataaataattgaaacctggcttctgaggtgtagGTTAGCACTACTTTGGCTGCTGCTCAAGCACGACTATGGAATGTGAGGGAAGAGAGAGACCAGTTTGAGGAAGCAAACAATCAGATAGTTGAACACCTGA
|| | ||| | | ||| | | | | ||| | || || ||| | | ||| ||||| | | | |||| | |||||| | | | ||||||| | ||| || | ||||||||||| ||||| ||||| |||||||||||||| || | | |||
-attctctttaactgtgctgcgaaatttgactagtttgctttgataattctgttgagctgtg---tccgtttgtaaattgt-aatattattcttcatttgcacagGTTAATATATCACTAAATGCTGCTGCTGGACGGCTCAAACAAACTAGGGAAGAGAGGGACCAATTTGACGAAGCAAACAATCAAATCATATTTAGCTTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgtgaagcctttaacttgatttataaataattgaaacctggcttctgaggtgtagGTTAGCACTACTTTGGCTGCTGCTCAAGCACGACTATGGAATGTGAGGGAAGAGAGAGACCAGTTTGAGGAAGCAAACAATCAGATAGTTGAACACCTGA
cttct CT-rich tract
tttaacttgatttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgactcctcactttaataatctatggggtattgttggtggatccgtgaagcctttaacttgatttataaataattgaaacctggcttctgaggtgtagGTTAGCACTACTTTGGCTGCTGCTCAAGCACGACTATGGAATGTGAGGGAAGAGAGAGACCAGTTTGAGGAAGCAAACAATCAGATAGTTGAACACCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - -cctcact
- - - - - - - - - - - -tatgggg
- - - - - - - - - - - - - - - - - - tggtgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggcttc
