Sequence
atgc intronic sequence ATGC exonic sequence...agttttactgaattgttagtgttgagctttcaataattatttagggtagaagcagtcctctgatgattgttgaggttatttttctccatactgtgaacagAATCTCGGTAACATTTGTCAACAAGGATGGCTCAGAAAAGACAATATGTGTTCCAGTTGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G013607_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g01930.1 (Oryza sativa), 3'ss of exon 4
----agttttactgaattgttagtgttgagctttcaataattatttagggtagaagcagtcctctgatgattgttgaggttatttttctccatactgtgaacagAATCTCGGTAACATTTGTCAACAAGGATGGCTCAGAAAAGACAATATGTGTTCCAGTTGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAG
| || | ||| || || | || || | | || || | | || || | | | ||||| | ||| |||| ||||| ||||||||||| |||||||||||| |||| ||||||| |||| || |||||||||||||| |||||||||||||||||||| ||||| ||
ctttaaaggggcttctccttcagtttttccctcctaggaaatagct--gtccaaaacaaccgattaatttttctaatgagcaaatttctttgtgctgc--acagGATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGTCCCTGTTGGAATGTCCATCTTAGAAGCTGCTCATGAAAATGACATCGAA
upper sequence: GRMZM2G013607_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA08G07780.1 (Glycine max), 3'ss of exon 1
-agttttactgaattgt-tagtgttgagctttcaataattatttagggtagaagcagtcctctgatgattgttgaggttatttttctccatactgtga-acagAATCTCGGTAACATTTGTCAACAAGGATGGCTCAGAAAAGACAATATGTGTTCCAGTTGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAG
| |||| ||||| || | | | | || ||| | || | || | ||| | ||| |||| | | | ||| || || ||||| ||| | |||||||||| || ||| || || || ||||||||||| ||||||||||| ||||||||||||||||| ||
cacaactact--attgtaccttgcttatatcatgtgagtttattaaaaaaaaaatgcacagttg-tcattctgctccttactttttgaggcaacattatgcagGATATCTGTAACTTTTATTGACAAGGATGGTGAGGAGAAGCATATCAAAGTCCCTGTTGGAATGTCTATGTTAGAAGCAGCTCATGAAAACGACATTGAA
upper sequence: GRMZM2G013607_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA13G17370.2 (Glycine max), 3'ss of exon 3
agttttactgaattgttagtgttgagctttcaataattatttagggtagaagcagtcctctgatgattgttgaggttatttttctccatactgtga-acagAATCTCGGTAACATTTGTCAACAAGGATGGCTCAGAAAAGACAATATGTGTTCCAGTTGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAG
|| | || | | ||||| |||| ||||| ||| | | || ||| ||| |||| | | | ||| || || ||||| ||| | | |||||||| || ||| || || || ||||||||||| ||||||||||||||||||||||| ||||| ||
agacagaatgcacaacgactgttgtactttgctcgtatattttactagatggcaatagtgc-atcattccgctccttactttttgaggcaacattatgcagGATATCTGTAACTTTTATTGATAAGGATGGTGAGGAGAAGCATATCAAAGTCCCTGTTGGAATGTCTATGTTAGAAGCTGCTCATGAAAATGACATTGAA
upper sequence: GRMZM2G013607_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA17G05130.1 (Glycine max), 3'ss of exon 3
agttttactgaattgttagtgttgagctttcaataattatttagggtagaagcagtcctctgatgattgttgaggttatttttctccatactgtga-acagAATCTCGGTAACATTTGTCAACAAGGATGGCTCAGAAAAGACAATATGTGTTCCAGTTGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAG
| | | ||| || | || | || | ||| | | | || || | | | ||| | ||| |||| | | | ||| || || ||||| ||| | | ||||| || || ||| || || || ||||||||||| ||||||||||||||||||||||||||||||||
actagatgtcaatagtgcatcatgtgagtttattaaaaaaaaaaaaaaagag-agcacagttgtcattctgctccttactttttgaggcaacattatgcagGATATCTGTAACTTTTATTGATAAGGACGGTGAGGAGAAGCATATCAAAGTCCCTGTTGGAATGTCTATGTTAGAAGCTGCTCATGAAAACGACATAGAA
upper sequence: GRMZM2G013607_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv11s0016g00530.t01 (Vitis vinifera), 3'ss of exon 4
-agttttactgaattgttagtgttgagctttcaat---aattatttagggtagaagcagtcctctgatgattgttgaggttatttttctccatactgtgaacagAATCTCGGTAACATTTGTCAACAAGGATGGCTCAGAAAAGACAATATGTGTTCCAGTTGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAG
| | ||| | | | | ||| | || | || | || | | | | | ||| || || || | ||| | | || | || ||| || || || ||||||| | |||||||| ||| | || | || || |||||||||| ||||||||||||||||||||||| || |||||
caatcttagttacacatcatggttctacatttcctcttaactcatttctgcatgtagattaccctggtgtttcttc---tcattcatatatttaat-tgtgcagGATATCTGTGTCATTTGTTGATAAGGATGGAGAGGAACATCACATTAGGGTCCCCATTGGAATGTCTATGTTAGAAGCTGCTCATGAAAATGATATAGAA
upper sequence: GRMZM2G013607_T02 (Zea mays), 3'ss of exon 4
lower sequence: EFJ36222 (Selaginella moellendorffii), 3'ss of exon 1
agttttactgaattgttagtgttgagctttcaataattatttagggtagaagcagtcctctgatgattgttgaggttatttttctccatactgtgaacagAATCTCGGTAACATTTGTCAACAAGGATGGCTCAGAAAAGACAATATGTGTTCCAGTTGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAG
|| ||| || || | ||| ||| || | | | | |||| ||| | ||| | | ||| ||| ||| ||| || ||||| | ||| || ||| ||||| || | ||||||||||| ||||| ||||| || ||||||||||| |||||||| |||
-gtattatcctatgctttccttccagca---aatttttttcccttctcttcataa-ctcctgaaacgccttgtgcttactcgagttt---tcgtgg-cagGATCGAGGTGACTTTTGTAACCAAAGAAGGCGATCGGAAGACGATTCGAGTTCCAGTTGGGATGTCAATGTTGGAGGCTGCTCATGAGAACGACATCGAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|76293836|gb|DV033404.1|DV033404EST: TCAACTGCAACAAGTGGTGATCTGGATGAAAGTAGTCAGGCAAAAGATAA CATCTCGGTAACATTTGTCAACAGGGATGGCTCAGAAAAGACAATATGTGT
genomic: TCAACTGCAACAAGTGGTGATCAGGATGAAAGTAGTCAGGCAAAAGATAAgtaagtgcat ... ctgtgaacagAATCTCGGTAACATTTGTCAACAAGGATGGCTCAGAAAAGACAATATGTGT
EST:
gi|60340656|gb|DN207629.1|DN207629EST: TCAACTGCAACAAGTGGTGATCAGGATGAAAGTAGTCAGGCAAAAGATAA AATCTCGGTAACATTTGTCAACAAGGATGGCTCAGAAAAGACAATATGTGT
genomic: TCAACTGCAACAAGTGGTGATCAGGATGAAAGTAGTCAGGCAAAAGATAAgtaagtgcat ... ctgtgaacagAATCTCGGTAACATTTGTCAACAAGGATGGCTCAGAAAAGACAATATGTGT
EST:
gi|76018911|gb|DT946081.1|DT946081EST: AAAGTAGTCAGGCAAAAGATAA AATCTCGGTAACATTTGTCAACAAGGATGGCTCAGAAAAGACAATATGTGT
genomic: AAAGTAGTCAGGCAAAAGATAAgtaagtgcat ... ctgtgaacagAATCTCGGTAACATTTGTCAACAAGGATGGCTCAGAAAAGACAATATGTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtagaagcagtcctctgatgattgttgaggttatttttctccatactgtgaacagAATCTCGGTAACATTTGTCAACAAGGATGGCTCAGAAAAGACAATATGTGTTCCAGTTGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAG
ctctgat putative branch site (score: 4)
tttttctccatact putative PPT
ttatttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttttactgaattgttagtgttgagctttcaataattatttagggtagaagcagtcctctgatgattgttgaggttatttttctccatactgtgaacagAATCTCGGTAACATTTGTCAACAAGGATGGCTCAGAAAAGACAATATGTGTTCCAGTTGGAATGTCCATGTTAGAAGCTGCTCATGAAAACGACATAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT