Sequence
atgc intronic sequence ATGC exonic sequencegtaggcacgattttgtttcatgtagtttacaaagttatttaagccatctgaatcacatacagtttcgttgcattccataaacagGGACCTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAATTTTCTTATTATGGTGCACCAGCCCCAACACCGAAGGAACAACTTTATGATGAGCTTGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G150212_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os08g31470.1 (Oryza sativa), 3'ss of exon 2
gtaggcacgattttgtttcatgtagtttacaaagttatttaagccatctg-aatcacata-cagtttcgttgcattccataaacagGGACCTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAATTTTCTTATTATGGTGCACCAGCCCCAACACCGAAGGAACAACTTTATGATGAGCTTGTTG
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--------gtatacggatcatgtggtttagcaatatatttaggtcatatgcaattacataatgaatttactgtgt--catacatagGGACCGGGGGGAGTGTGGTGTGATGTCGATGTTGTTGAATTCTCTTACTATGGGGCACCAGCACCAACTCCAAAGGAACAATTGTATGACGAGCTTGTTG
upper sequence: GRMZM2G150212_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA07G34800.1 (Glycine max), 3'ss of exon 2
------------------gtaggcacgattttgtttcatgtagtttacaaagttatttaagccatctgaatcacatacagtttcgttgcattccataaacagGGACCTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAATTTTCTTATTATGGTGCACCAGCCCCAACACCGAAGGAACAACTTTATGATGAGCTTGTTG
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tcttaaagcaacaatggaactaaagcaatattatttaagatcttatgttt-gttataatttctaattgaagatgctgaagttatctcttatttc-caaacagGGGCCGGGAGGTGTTTGGTGTGATGTGGATGTTGTGGAGTTCTCCTATTATGGTGCACCTGCACAAACTCCTAAAGAACAATTATATACGGAGCTTGCTG
upper sequence: GRMZM2G150212_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA20G02500.1 (Glycine max), 3'ss of exon 1
-----------------gtaggcacgattttgtttcatgtagtttacaaagttatttaagccatctgaatcacatacagtttcgttgcattccataaacagGGACCTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAATTTTCTTATTATGGTGCACCAGCCCCAACACCGAAGGAACAACTTTATGATGAGCTTGTTG
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agcaacaatggaactatagaactattatttaagatcttaagtttgatataatt-tctaattaaagatgctgatctgaagtcatctcttaatttccaaacagGGGCCGGGAGGTGTTTGGTGTGATGTGGATGTTGTGGAGTTCTCCTATTATGGTGCACCTGCACAAACTCCTAAAGAACAATTATATACGGAGCTTGCTG
upper sequence: GRMZM2G150212_T03 (Zea mays), 3'ss of exon 4
lower sequence: AT5G45030.2 (Arabidopsis thaliana), 3'ss of exon 2
-----------------------------------------------------------------------------------------gtaggcacgattttgtttcatgtag-tttacaaag-----ttatttaagccatct----gaatcacataca-gtttcgttgcattcca--taaacagGGACCTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAATTTTCTTATTATGGTGCACCAGCCCCAACACCGAAGGAACAACTTTATGATGAGCTTGTTG
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gtgagatatctcttgcctatgatactttacttataatcgtttgcttgtgcttgaaagagtatattggaacttttagtaatgtaggtactacagcatggaacctattatagaaaactttactaatgccgcctatttatgttgccttctggaatcctttttttacttcatagtatcttgctttgatagGGTCCTGGAGGAGTTTGGTGTGATGTAGATGTTGTTGAGTTTCAATATTATGGTGCACCTGCGCAAACACCTAAAGAGCAGGTGTATACAGAGCTTGTTG
upper sequence: GRMZM2G150212_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv19s0027g00520.t01 (Vitis vinifera), 3'ss of exon 1
--------gtaggcacgattttgtttcatgtagtttacaaagttatttaagccatctgaatcacatacagtttcg--------ttgcattccataaacagGGACCTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAATTTTCTTATTATGGTGCACCAGCCCCAACACCGAAGGAACAACTTTATGATGAGCTTGTTG
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tttccccttttggttttgaattgtttgatatttttcaatgcatgtcctgtatgatttgacatgtgttttattttgatgttgaattgcttccttctatcagGGGCCTGGAGGTCTATGGTGTGATGTGGATGTGGTTGAATTTGCTTATTTTGGTGCACCTGAGTTAGCTCCCAAAGAACAGTATTATACTGAGATTATGG
upper sequence: GRMZM2G150212_T03 (Zea mays), 3'ss of exon 4
lower sequence: Vv01s0011g01870.t01 (Vitis vinifera), 3'ss of exon 3
------------gtaggcacgattttgtttcatgtagtttaca-----aagttatttaagccatctgaatcacatacagtttcgttgcattccataaacagGGACCTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAATTTTCTTATTATGGTGCACCAGCCCCAACACCGAAGGAACAACTTTATGATGAGCTTGTTG
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tactgcaacttggtatggttcatatcttgacagggaaactaaacttggatattgttcaagttttcttgga-agttgaaatgcctttaaatctattgagcagGGACCAGGAGGCGTATGGTGTGATGTGGATGTTGTGGAATTCTCTTACTATGGTGCACCTGCACCAACACCCAAAGAACAATTGTATACTGAACTTGTCGMapped 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|29946876|gb|CB816368.1|CB816368EST: TTCACAGGAAGTGGCTCAGCCCTACTCAATGTCTTCCAGGTGCCCTTGAG GGACCTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAATTTTCTTATTAT
genomic: TTCACAGGAAGTGGCTCAGCCCTACTCAATGTCTTCCAGGTGCCCTTGAGgtaggcacga ... ccataaacagGGACCTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAATTTTCTTATTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaagttatttaagccatctgaatcacatacagtttcgttgcattccataaacagGGACCTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAATTTTCTTATTATGGTGCACCAGCCCCAACACCGAAGGAACAACTTTATGATGAGCTTGTTG
ttatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggcacgattttgtttcatgtagtttacaaagttatttaagccatctgaatcacatacagtttcgttgcattccataaacagGGACCTGGGGGTGTGTGGTGTGATGTTGATGTTGTTGAATTTTCTTATTATGGTGCACCAGCCCCAACACCGAAGGAACAACTTTATGATGAGCTTGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT