Sequence
atgc intronic sequence ATGC exonic sequencegtacttgtgcatttgctaaataaatttattagtagtgagcttttatagacaaggctgtttcaatgcagGCAGATATCTGGTCTTTAGGTATCACTGCCATTGAAATGGCTAAAGGTGAACCCCCTCTGGCAGATATTCATCCCATGAGAGTTCTTTTCATCATACCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G027756_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os07g32400.2 (Oryza sativa), 3'ss of exon 8
gtacttgtgcatttg---ctaaataaatttattagtagtgagcttttatagacaaggctgtttc--aatgcagGCAGATATCTGGTCTTTAGGTATCACTGCCATTGAAATGGCTAAAGGTGAACCCCCTCTGGCAGATATTCATCCCATGAGAGTTCTTTTCATCATACCTC
||| ||||| ||| |||| | || | || ||| ||||| || |||| |||| || |||||||||||||||||||| |||||||| ||||| ||||||||||| ||||||||||||||| |||||||||| ||||||||||||||||||||||| |||||||
gtagctgtgcgtttttctttaaacagtttgctgcttactgaactttt-tacccaagtctgtgtcctgatgcagGCAGATATCTGGTCGTTAGGTATAACTGCTATTGAAATGGCAAAAGGTGAACCCCCTTTGGCAGATATCCATCCCATGAGAGTTCTTTTCATGATACCTC
upper sequence: GRMZM2G027756_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA13G34970.1 (Glycine max), 3'ss of exon 9
-------------------------------------------------gtacttgtgcatttgctaaataaatttattagtagtgagcttttataga--caaggctgtttcaat--------gcagGCAGATATCTGGTCTTTAGGTATCACTGCCATTGAAATGGCTAAAGGTGAACCCCCTCTGGCAGATATTCATCCCATGAGAGTTCTTTTCATCATACCTC
| || | || | | | ||| ||||| | ||| |||| || ||| ||| ||||||||||||||||||| | || |||||||| ||||| ||||| || || || || || || || ||| |||| || |||||||| |||||||| ||||| |
gttgtaatatatttagtctaaatctcttttgttatgtttctctttggttctgttttttcacctttatttttagtttgttagtcattgtttttcttagaatcatcactggagtaatctgtttttgcagGCAGATATCTGGTCTCTGGGAATCACTGCAATTGAGATGGCAAAGGGGGAGCCTCCACTTGCTGATCTTCACCCAATGAGAGTGCTTTTCATTATACCCC
upper sequence: GRMZM2G027756_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA06G36130.3 (Glycine max), 3'ss of exon 8
--------------------------------------------------------------------gtacttgtgcatttgctaaataaatttattagtagtgagcttttatagacaaggctgtttcaatgcagGCAGATATCTGGTCTTTAGGTATCACTGCCATTGAAATGGCTAAAGGTGAACCCCCTCTGGCAGATATTCATCCCATGAGAGTTCTTTTCATCATACCTC
| ||| | ||| | | ||| | | || | | | | | || ||||||||||| |||||| | || || ||||| || || ||||| ||||| || || || || || ||| ||||||| |||||||| |||||||||||||| |
gtatttttatagttactacaaaaatcatttatgttttctttgagttcatgctaacatgtttctttttattctctgttcctttattgtttttgtttttatcccctaagaatcatcactctgtatcttgtttatacagGCAGATATATGGTCTCTGGGCATTACTGCAATAGAGATGGCAAAAGGGGAGCCTCCACTTGCTGATCTTCATCCAATGAGAGTGCTTTTCATCATACCCC
upper sequence: GRMZM2G027756_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA12G27300.1 (Glycine max), 3'ss of exon 9
--------------------------------------------------------------------gtact-tgtgcatttgctaaataaatttattagtagtgagcttttatagacaaggctgtttcaatgcagGCAGATATCTGGTCTTTAGGTATCACTGCCATTGAAATGGCTAAAGGTGAACCCCCTCTGGCAGATATTCATCCCATGAGAGTTCTTTTCATCATACCTC
| || ||| | ||| | | ||| | | || | | | | | || |||||||||||||||||| | || || ||||| ||||| ||||| ||||| || || || || || ||| ||||||| |||||||| |||||||||||||| |
gttatcttatagttactactcaaatcatttattatgctttctgagttcatcctaacatatttcttttcatcctctgttcctttattgtttttgtttttatcccctaagaatcatcactctgtatcttgtttatacagGCAGATATCTGGTCTCTGGGCATTACTGCGATTGAGATGGCAAAAGGGGAGCCTCCACTTGCTGATCTTCATCCAATGAGAGTGCTTTTCATCATACCCC
upper sequence: GRMZM2G027756_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA12G35510.1 (Glycine max), 3'ss of exon 8
---------------------------------------------------gtacttgtgcatttgctaaataaatttattagtagtgagcttttataga-------caaggctgtttcaat---gcagGCAGATATCTGGTCTTTAGGTATCACTGCCATTGAAATGGCTAAAGGTGAACCCCCTCTGGCAGATATTCATCCCATGAGAGTTCTTTTCATCATACCTC
|| || | ||| | | | |||| | | |||| |||| | | | || | ||||||||||||||||||| | || |||||||| ||||| ||||| || || || || || || || ||| |||| || |||||||| |||||||| ||||| |
gttgtaatatatttagtctaaatctcttttgttatgtttctctttggttctgtttttccacctttattttcagtttgtgatagtcattggattttttagaatcatcactggagtattctgtttttgcagGCAGATATCTGGTCTCTGGGAATCACTGCAATTGAGATGGCAAAGGGGGAGCCGCCACTTGCTGATCTTCACCCAATGAGAGTGCTTTTCATTATACCCC
upper sequence: GRMZM2G027756_T02 (Zea mays), 3'ss of exon 5
lower sequence: PP1S98_82V6.1 (Physcomitrella patens), 3'ss of exon 8
--------------------------------------------------gtacttgtgcatttgctaaataaatttattagtagtgagcttttatagac-aaggc----tgtttcaatgcagGCAGATATCTGGTCTTTAGGTATCACTGCCATTGAAATGGCTAAAGGTGAACCCCCTCTGGCAGATATTCATCCCATGAGAGTTCTTTTCATCATACCTC
| ||| | ||| || || || | | || | ||| |||| || || |||| | ||||||||||||| ||||| || || |||||||||||||||||||| ||||| ||||| ||| || ||| | || || ||| | || || || | || ||
gtaattatttaggttgtatcgacccttcgcttagaggagtaccgactcttcttcttcctctttttcttcttattcttgtcaatactc--cttcaatagctgaaagcagtgcgttttattgcagGCAGATATATGGTCATTGGGAATCACTGCCATTGAAATGGCGAAAGGGGAACCACCTTATGCTGATTTACACCCTATGCGGGTGCTCTTTCTAATTCCCAMapped 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|38502591|gb|CF972451.1|CF972451EST: TTGGGATGGCACCTGAGGTTATTCAAA-TTCTGAAGGGTACAATGAAAAG GCAGATATCTGGTCTTTAGGTATC-CTGCCATTGAAATGGCTAA
genomic: TTGG-ATGGCACCTGAGGTTATTCAAAATTCTGAAGGGTACAATGAGAAGgtacttgtgc ... ttcaatgcagGCAGATATCTGGTCTTTAGGTATCACTGCCATTGAAATGGCTAA
EST:
gi|76282537|gb|DV022105.1|DV022105EST: TTTGGATGGCACCTGAGGTTATTCAAAATTCTGAAGGGTACAATGAGAAG GCAGATATCTGGTCTTTAGGTATCACTGCCATTGAAATGGCTAAAGGTGAA
genomic: TTTGGATGGCACCTGAGGTTATTCAAAATTCTGAAGGGTACAATGAGAAGgtacttgtgc ... ttcaatgcagGCAGATATCTGGTCTTTAGGTATCACTGCCATTGAAATGGCTAAAGGTGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctaaataaatttattagtagtgagcttttatagacaaggctgtttcaatgcagGCAGATATCTGGTCTTTAGGTATCACTGCCATTGAAATGGCTAAAGGTGAACCCCCTCTGGCAGATATTCATCCCATGAGAGTTCTTTTCATCATACCTC
tgctaaa putative branch site (score: 2)
ctgtttc putative PPT
aataaatttattagta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttgtgcatttgctaaataaatttattagtagtgagcttttatagacaaggctgtttcaatgcagGCAGATATCTGGTCTTTAGGTATCACTGCCATTGAAATGGCTAAAGGTGAACCCCCTCTGGCAGATATTCATCCCATGAGAGTTCTTTTCATCATACCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT