Sequence
atgc intronic sequence ATGC exonic sequence...atatagcacttcgatctgattaggttctgagatttgctgatgtttttgttttgggtacacccaggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G095593_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g49150.1 (Oryza sativa), 3'ss of exon 4
---------------------------------atatagcacttcgatctgattaggttctgagat--ttgctgatgt-ttttgttttgggtacacccaggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC
| | || || | | | | || || | | || | |||||| | | |||||||| ||||| || |||||||||||||||||||||||||||| |||||||||||||||||| ||||| ||||| ||||||| | | ||
tttataatgtgctcgctcattgattatgtctggaagaaacaatttgcatggtcctcacttccacattcttaccgtggtgtgctgttttatgatttcacagGTGACACATGCTGACTTCAAGAAGGCAAAGGAGAAGGTGATGTTCAAGAAGAAGGAAGGTGTGCCGGAGGGTCTTTACATGTGATGTGCTCACTGGTCGC------------------------------------
upper sequence: GRMZM2G095593_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA19G35510.1 (Glycine max), 3'ss of exon 5
------------------------------atatagcacttcg-atctgattaggttctgagatttgctgatgtttttgttttggg----tacacc-caggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC
| || | | ||| | | || || | |||||||| |||| | | | |||||||| ||||| || ||||||||||||||||| ||||| |||| |||||||| ||||| || || || || || || |||| | | ||||||||
aagtgatcctattttgttttctacctttttttggaggggtgtgtgtcttttcctttactctcatgaccaaatgttttttttttaaaatcttgctcttcagGTGACGCATGCCGACTTCAAGAAGGCAAAGGATAAGGTTATGTTTAAGAAGAAAGAAGGGGTGCCAGAAGGACTGTATATGTGA--AGCATCTTCATCATTT----------------------------------
upper sequence: GRMZM2G095593_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT4G29040.1 (Arabidopsis thaliana), 3'ss of exon 5
-----------------------------------------------atatagcacttcgatc-tgattaggttctgagatttgctgatgtttttgttttgggtacacccaggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC
| | | ||||| | | | ||| |||| ||| |||| ||| |||| | |||||||| ||| | ||||||||||| |||||||||||||| |||| ||||||||| ||||| || || || || ||||||||||| || ||| ||||| ||
gtagagactcttaaccatttagttcaagcacatacaaacacacacacacacaccacttgggcaattactagccactga----cgctaatgtgtttaaattggatttgttcagGTGACACATCCTGATTTCAAGAAAGCAAAGGAGAAGGTTATGTTCAAGAAGAAAGAAGGCGTCCCTGAAGGCCTCTACATGTA---AAATTATA-ATCATATCG--------------------------------
upper sequence: GRMZM2G095593_T02 (Zea mays), 3'ss of exon 1
lower sequence: AT2G20140.1 (Arabidopsis thaliana), 3'ss of exon 5
------------------------atatagcacttcgatctgattaggttctgagatttgctgatgtttttgttttgggtac-----acccaggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC
| | | |||| | | | | | ||| || ||||||| | | | ||||||| |||| || ||||||||||| ||||||||||| |||| ||||||||| ||||| ||||| || ||||| ||||||| || | || |
gtaaggattctctggcttctcaccacttgattcatcgaacgcaatctttgaataattttactttaacctttgtttggtcttctattggtttagGTGACGCATGTGGACTTCAAGAAGGCGAAGGAGAAGGTTATGTTCAAGAAGAAAGAAGGAGTTCCTGAAGGTCTTTACATGTGAATGATGCA--CAACGACT----------------------------------
upper sequence: GRMZM2G095593_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv07s0005g05160.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------------atatagcacttcgatctgattaggttctgagatttgctgatgtttttgtt-ttgggtaca----cccaggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC
| | || | |||| | | | | ||| | || ||| |||||||| |||| ||| |||||||||||||||||||||||||||| ||||||||| ||||| || || || || || ||||||| | || | ||
ggaagaagttgaatgcattacctgactacatgtttgctgattttagtcacctaggaccaggatcccaattaaatttgactggttaaatactgtgcttcagGTGACTCATGTAGACTTCAAGAAGGCAAAGGAGAAGGTGATGTTCAAGAAGAAAGAAGGGGTGCCAGAAGGACTTTACATGTGAAAACACTGCTACATAT------------------------------------
upper sequence: GRMZM2G095593_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S109_234V6.1 (Physcomitrella patens), 3'ss of exon 4
-----------------------------------------------------------------------------------------------------------atatagc-acttcgatctgattag----gttctgagatttgctg-atgtttttgttttgggtacacccaggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC
||| | | || ||| | | || ||| || ||| || || || ||| | | | |||||||| || | |||||||||||||| || ||||| |||||||| ||||||||||| || || || || ||| | ||||||||| || | | |
gtgagactgttcgtattttgcatttcatgaatatgggcttcttgactagttgaaatcaggtgccagttatgcagtactttattattgcaccttcaaggttttagttgataatgtgattttgattttttcagcacggttgtgcaattaaatggatcttattggatgttggtcctgcagGTGACTCAAGTCGATTTCAAGAAGGCTAAAGAGAAAGTGATGTATAAGAAGAAGGAGGGCGTGCCTGAGGGTTTGTACATGTAGAGTATTCAGTACAGGT------------------------------------
upper sequence: GRMZM2G095593_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S12_207V6.1 (Physcomitrella patens), 3'ss of exon 4
--------------------------------------------------------------atatagcacttcgatctgattag--gttctgagatttgctgatg-----tttttgttttgggta-----cacccaggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC
||| | || | |||| | | ||| | | | ||| || ||||||||| | | |||||||| || | |||||||||||||| || |||||||| ||||| ||||||||||||||||| || || || | ||||||||| || | | |
gtaagattgtcgtcttttgtactttgcagttcgtgaatggaggctaattgaccagctgaaatgaataaaagttgcttttgatcaaaagacctggtttcttgtaatgagttgttattgttttggatggtgatcttgcagGTGACTCAAGTTGATTTCAAGAAGGCCAAAGAGAAGGTAATGTATAAGAAGAAGGAAGGTGTACCTGAGGGATTATACATGTAGATTATTCAGTGCAGGT------------------------------------
upper sequence: GRMZM2G095593_T02 (Zea mays), 3'ss of exon 1
lower sequence: PP1S4_277V6.1 (Physcomitrella patens), 3'ss of exon 5
-------------------------------------------------------------------------------------------------atatagcacttcgatctgattaggttctgagatttgctgatgtttttgttttgggtacacc-caggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC
| | | || || | ||||| || | | || | || || | || |||||||| || || || ||||||||||| ||||| || |||||||||||||||||||||||||| || || || | || |||||| | | ||| ||
gtgagcttgccatttctttgtattcttttatatgtatttttaatgcgtctcgtcagaggttacacttttttagttgccctcatggctgtataattgcaggctttgaattggcttgttttgattctgtgactaagtattgactgtggattcttaatgccacagGTGACTCAAGCGGACTTCAAGAAGGCTAAGGACAAAGTGATGTACAAGAAGAAGGAAGGTGTACCCGAGGGGTTATATATGTAGAATACTCAGTCAA-GTG-----------------------------------
upper sequence: GRMZM2G095593_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ20767 (Selaginella moellendorffii), 3'ss of exon 5
atatagcacttcgatctgattaggttctgagatttgctgatgtttttgttttgggtacacccaggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC
||| ||||| || || | | ||| || || || | |||||| || || || |||||||||||||| || |||||||| |||||||||||||| ||||| || ||||| || || |||||||| | | || | |
--gtagtttctcgatgcttttcacaactttcttgtaacgattttcttcttct--------ccagGTAACTCAAGCTGATTTCAAGAAGGCGAAAGAGAAGGTCATGTACAAGAAGAAAGAAGGCGTCCCGGAGGGCCTGTACATGTAAATAGCCGTCCCAGCTT------------------------------------
upper sequence: GRMZM2G095593_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ32659 (Selaginella moellendorffii), 3'ss of exon 5
atatagcacttcgatctgattaggttctgagatttgctgatgtttttgttttgggtacacccaggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC
||| || || || || | | ||| || || || | |||||| || || || |||||||||||||| || |||||||| |||||||||||||| ||||| || ||||| || || |||||||| | | || | |
--gtagtttctcaatgcttttcacaactttcttgtaacgattttcttcttct--------ccagGTAACTCAAGCTGATTTCAAGAAGGCGAAAGAGAAGGTCATGTACAAGAAGAAAGAAGGCGTCCCGGAGGGCCTGTACATGTAAATAGCCATCCCAGCTT------------------------------------Mapped 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|166623127|gb|EG087655.1|EG087655EST: GTTGATCCTATGGTATCT GTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCA
genomic: GTTGATCCTATGGTATCTgtgatgaaag ... aaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttttgggtacacccaggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC
atttcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatagcacttcgatctgattaggttctgagatttgctgatgtttttgttttgggtacacccaggtgacccatgcagatttcaagaaggcaaaggagaagGTGATGTACAAGAAGAAGGAAGGTGTTCCGGATGGTCTCTACATGTAGCCAATCTATTCATCATGCCGAACAAGTTACCCGATTGTGTGTGTACTAGCAC
- - -gcacttc
- - - - - - - - - - - ggttctg
- - - - - - - - - - - - - - - - - -gctgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgca