Sequence
atgc intronic sequence ATGC exonic sequencegtacaattttgtactcagctgtatgttttgagtgtttgattgttctatccagtcctaaggtggtgtgctttatggcaaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACACATAATATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G000645_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 3'ss of exon 7
---gtacaattttgtactcagctgtatgttttgagtgtttgattgttctatccagtcctaaggtggtgtgctttatggcaaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACACATAATATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
| || | | | | || |||| ||| | | |||| | |||||||||| ||||||| | |||| || |||||||||||||||| ||||||||||||||||||||||||||||| |||||||| || ||||||||||||||||||||||||||||| |||||||||||||
gttttttttttctatccacttttgagtgttccaagtatcc-acgattctgtgcagtcctaagatggtgtggtc-atggtgaaccagGTCTGGGATTACCAAACGAAGAGCTGTGTTCAGACACTTGAAGGACATACACACAACATTTCTGCTGTTTGTTTCCATCCTGAGCTTCCTATAATCATTA
upper sequence: GRMZM2G000645_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 7
-------------------------gtacaattttgtactcagctgtatgttttgagtgtttgattgttctatccagtcctaaggtgg-tgtgctttatggcaaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACACATAATATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
|| |||||| || | || | | | || | | || ||| ||| || ||||| || |||| |||||||| ||||| || || ||||| ||||| || ||||| || ||||| ||| | |||||||| || || |||||||| || |||||||||||||
gttttgttttcatttgttgcttgatctatctgcttgtacgcatttacatatacatacatatatatatatatgaaaaggaataacatggatgaaacttatg---aatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
upper sequence: GRMZM2G000645_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 7
------gtacaattttgtactcag-ctgtatgttttgagtgtttgattgttc-tatccagtcctaaggtggtgtgcttta--------tggcaaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACACATAATATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
| |||| | || | || | || || | | | | || | | || | | | | || |||| |||||||| ||||| || || ||||| ||||| || ||||| || ||||| ||| | |||||||| || || |||||||| || |||||||||||||
gttttgttttcatttgttgcttaatctatctgcttgtcgcgcacacgcacacacacacatgtatgaaaaggaataacatggatgaaacttacgaatcagGTATGGGATTATCAGACCAAAAGTTGTGTCCAGACCCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTTCCTATAATCATTA
upper sequence: GRMZM2G000645_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 7
----------------gtacaattttgtactcagctgtatgttttgagtgtttgattgt---tctatccagtcctaaggtggtgtgctt-tatggc----aaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACACATAATATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
| |||| || | ||| || ||| | | | ||| | | | | ||| || | ||| |||| ||||| || || || || || ||||| ||||| || ||||| || ||||| ||| | ||||||||||| || |||||||| || |||||||||||||
gtttgttttctattttctgtttttttcctcttcatcttccctttaatttggttgcctatatgtgtatatggataggaattattatgccaataaaacctttgaaacagGTATGGGACTATCAAACCAAAAGTTGTGTCCAGACTCTAGAAGGTCACACACACAATGTATCTGCTGTTTGCTTTCATCCTGAACTACCTATAATCATTA
upper sequence: GRMZM2G000645_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA07G03890.1 (Glycine max), 3'ss of exon 7
----------------gtacaattttgtactcagctgtatgtt--ttgagtgtttgattgttctatccagtcctaaggtggtgtgctt-tatggc----aaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACACATAATATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
| ||| | ||| || | || || | || || ||| | | | | ||| || | || |||| |||||||| || || || || ||||| ||||| || ||||| || ||||| ||| | |||||||| || || |||||||| || |||||||||||||
gtttgttttctattttctgttttttcctcttcatcttccctctaatttggtttcctatatttgtatatggataggaattattatgccgataaaacctttgaatcagGTATGGGATTATCAAACCAAAAGTTGTGTCCAGACTCTAGAAGGTCACACACACAATGTATCTGCTGTATGCTTTCATCCTGAACTACCTATAATCATTA
upper sequence: GRMZM2G000645_T03 (Zea mays), 3'ss of exon 7
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 11
-------------------------------------------------gtacaattttgtact--cagctgtatgttttgagtgtttgattgttc-----tatccagtcctaaggtg---gtgtgctttatggcaaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACACATAATATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
|| | | |||| || ||||| |||| | | | | || | | || | || || | || | || |||| ||||||||||| || ||||| || |||||||| || ||||| |||||||| ||| ||||||| || | ||| ||||| ||||| |||||||| ||||
gtctgtactgagctttcttgcttctttgcaagttgtttgctacatatgtgtgcttgtatgtatctccatttgtattgtttgtatataggttcgtgcagggttttctgtttgtatattgttcataaatttcttctggaagcagGTGTGGGATTACCAAACAAAGAGTTGCGTTCAGACTCTCGAAGGTCATACACACAATGTTTCTGCAGTATCTTTTCATCCAGAGCTACCTATAATTATTA
upper sequence: GRMZM2G000645_T03 (Zea mays), 3'ss of exon 7
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 7
gtaca-attttgtactca---gctgtatgttttgagtgtttgattgttctatccagt--cctaaggtggtgtgctttatggcaaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACACATAATATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
|| || | | || | || || || | | || ||| || | | | ||| | | || ||| || |||| ||||| ||||| || || || |||||||||||||| ||||| || ||||| ||| ||||| | || ||||||||||| ||||| ||||| || |||
gtgtttatctgatgcttattgactaaatagcttccatttatgtgcattccatttgattactttctgtgat-taaattttggtggaacagGTGTGGGACTACCAAACCAAAAGTTGTGTTCAGACACTAGAAGGCCACACACACAATGTTTCTTCAGTCTGTTTCCATCCAGAGCTTCCTATTATTTTTA
upper sequence: GRMZM2G000645_T03 (Zea mays), 3'ss of exon 7
lower sequence: PP1S243_63V6.1 (Physcomitrella patens), 3'ss of exon 7
-------gtacaattttgtactcagctgtatgtt--ttgagtgtttga-ttgttc--tatccagtcctaaggtggtgtgctttatggc------aaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACACATAATATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
||| || | | | | || | | ||| || | ||||| ||| | | || || | | | | | | |||| ||||||||||| || ||||||||||| ||||| | || || ||| | |||||| | ||||| || |||||||||||||||||||| || || | |
cgacgtggta-aacgtcatgtttaagtgaagatcacttggtcattcaagttgttgcatattgattgcttagtttcccttcctggcgttctctttgatgcagGTGTGGGATTACCAAACCAAGAGCTGTGTGCAGACTTTAGAGGGTCATTCTCATAATGTGTCTGCAGTGTGTTTCCATCCTGAGCTCCCCATCATTTTAAMapped 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|26457397|gb|CA828980.1|CA828980EST: GTGG-GACAGGCCCTATTTGATTACTGGTTCTGATGACTCCACCGCAAAG GTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACA
genomic: GTGGTGACAGGCCCTATTTGATTACTGGTTCTGATGACTCCACCGCAAAGgtacaatttt ... ggcaaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACA
EST:
gi|32931674|gb|CF036486.1|CF036486EST: GTGGTGACAGGCCCTATTTGATTACTGGTTCTGATGACTCCACCGCAAAG GTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACA
genomic: GTGGTGACAGGCCCTATTTGATTACTGGTTCTGATGACTCCACCGCAAAGgtacaatttt ... ggcaaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagtgtttgattgttctatccagtcctaaggtggtgtgctttatggcaaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACACATAATATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
gtttgat putative branch site (score: 5)
aaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaattttgtactcagctgtatgttttgagtgtttgattgttctatccagtcctaaggtggtgtgctttatggcaaaatagGTCTGGGATTACCAGACGAAGAGCTGTGTTCAGACACTTGAAGGGCATACACATAATATTTCTGCTGTTTGTTTCCATCCTGAGCTCCCTATAATCATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT